singleron-rd / celescope Goto Github PK

View Code? Open in Web Editor NEW

83.0 3.0 28.0 9.61 MB

Single Cell Analysis Pipelines

Home Page: https://www.singleron.bio/

License: MIT License

HTML 12.45% CSS 6.65% Python 75.39% Shell 0.02% Dockerfile 0.07% Perl 5.42%

bioinformatics single-cell-analysis

celescope's People

Contributors

Stargazers

Watchers

celescope's Issues

about celescope RNA featurescount !

Dear sir:
Hello! I want to inquire about the celescope RNA featurescount instruction. My sample is the nucleus. In gene quantification, whether to select gene in parameter --gtf_type or add other instructions of featureCounts under --featureCounts_param. We look forward to your reply.

SNP pipeline error

HI:
I am trying the celescope_test_script on celescope_test_data using SNP pipeline. I had this error in the middle of the run:

bcftools: symbol lookup error: /opt/conda/envs/saturn/envs/celescope/bin/../lib/libgsl.so.25: undefined symbol: cblas_ctrmv

I installed Celescope from github follow the instructions from here: https://github.com/singleron-RD/CeleScope/blob/master/docs/installation.md.

$ git clone https://github.com/singleron-RD/CeleScope.git
$ cd CeleScope
$ conda install mamba
$ mamba create -n celescope -y --file conda_pkgs.txt
$ conda activate /opt/conda/envs/saturn/envs/celescope
$ pip install celescope

then install reference db

celescope rna mkref
--thread 32
--genome_name Homo_sapiens_ensembl_99
--fasta Homo_sapiens.GRCh38.dna.primary_assembly.fa
--gtf Homo_sapiens.GRCh38.99.gtf

then install SNP db
celescope snp mkref
--thread 32
--genome_name Homo_sapiens_ensembl_99
--fasta Homo_sapiens.GRCh38.dna.primary_assembly.fa

then run the run_shell.sh under the celescope_test_script/snp/
a folder named "shell" was generated and a sh script was in it.

then I run the sh script under the "shell" dir from the celescope_test_script/snp/ dir.

everything was fine and the GATK was finished successfully.

the error came out when the pipeline tried to use bcftools to call the variants.

2022-09-20 03:35:07,085 - celescope.tools.step.debug_subprocess_call - INFO - bcftools mpileup -f /home/jovyan/git/CeleScope/hs_ensembl_99/Homo_sapiens.GRCh38.dna.primary_assembly.fa --threads 4 --annotate DP,AD -d 100000000 -o .//test1/07.variant_calling/test1_raw.bcf .//test1/07.variant_calling/test1_splitN.bam --regions-file /opt/conda/envs/saturn/envs/celescope/lib/python3.9/site-packages/celescope/data/snp/panel/lung_1.bed
bcftools: symbol lookup error: /opt/conda/envs/saturn/envs/celescope/bin/../lib/libgsl.so.25: undefined symbol: cblas_ctrmv

please advise how to solve this issue.

Thanks you very much for your help!

compatibility with velocyto

after running CeleScope, I want to run velocyto and do Rna velocity analysis. My code is like this:
dir_mk ${WORK_DIR}/result/${SAMPLE}/velocyto
cd ${WORK_DIR}/result/${SAMPLE}
velocyto run -b 05.count/${SAMPLE}_matrix_10X/barcodes.tsv -o ./velocyto ./03.star/${SAMPLE}_Aligned.sortedByCoord.out.bam ${mygtf}

Here is my CeleScope result dir:

After I run the code, I got "OSError: The bam file does not contain cell and umi barcodes appropriatelly formatted. If you are runnin UMI-less data you should use the -U flag".
NOTE:
the input bam for velocity should have:

Be sorted by mapping position.
Represents either a single sample (multiple cells prepared using a certain barcode set in a single experiment) or single cell.
Contain an error corrected cell barcodes as a TAG named CB or XC.
4)Contain an error corrected molecular barcodes as a TAG named UB or XM.

Indeed, I can't find CB, XC,UB, XM tag in /03.star/${SAMPLE}_Aligned.sortedByCoord.out.bam header.
Can you help me get this info? Any suggestions will be apprepiated.

what's the adapter for the sequence

How do I know the adapter of sequencing?

ImportError: dlopen: cannot load any more object with static TLS

Hello, unfortunately, I found that python module import error would be reported on my server to install Celescope software following the tutorial. It is very strange, I am sure that the version of all dependent python packages are concordant. Would you give some advises to solve this bug? Thanks!

Failing in installing celescope

When i was following the instructions of installing celescope, i got some problems.

My scripts are as follows:

python3 -m pip install -i https://pypi.mirrors.ustc.edu.cn/simple/ celescope
Looking in indexes: https://pypi.mirrors.ustc.edu.cn/simple/
Collecting celescope
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/f5/d6/8faa6c1c664923dde58a85525fa5441bc10b804f873d8dbb2dc6162cfc70/celescope-1.3.1-py3-none-any.whl (2.6 MB)
Collecting scipy==1.4.1
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/dc/29/162476fd44203116e7980cfbd9352eef9db37c49445d1fec35509022f6aa/scipy-1.4.1-cp36-cp36m-manylinux1_x86_64.whl (26.1 MB)
Collecting cutadapt==1.17
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/10/36/7e4b7707c828689b724d4a7b40a4b7983cf04a9e655d5e93cab8a873ecfd/cutadapt-1.17-cp36-cp36m-manylinux1_x86_64.whl (503 kB)
Collecting matplotlib==2.2.2
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/49/b8/89dbd27f2fb171ce753bb56220d4d4f6dbc5fe32b95d8edc4415782ef07f/matplotlib-2.2.2-cp36-cp36m-manylinux1_x86_64.whl (12.6 MB)
Collecting mutract
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/61/a6/002e82d87834e25758dbf8ce7484c67f6050ff90dd8432ff4417c4f593d0/mutract-1.1-py3-none-any.whl (7.5 kB)
Collecting numpy==1.19.5
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/14/32/d3fa649ad7ec0b82737b92fefd3c4dd376b0bb23730715124569f38f3a08/numpy-1.19.5-cp36-cp36m-manylinux2010_x86_64.whl (14.8 MB)
Collecting jinja2>=2.10
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/80/21/ae597efc7ed8caaa43fb35062288baaf99a7d43ff0cf66452ddf47604ee6/Jinja2-3.0.1-py3-none-any.whl (133 kB)
Collecting editdistance>=0.5.3
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/77/67/2b1fe72bdd13ee9ec32b97959d7dfbfcd7c0548081d69aaf8493c1e695f9/editdistance-0.5.3-cp36-cp36m-manylinux1_x86_64.whl (178 kB)
Collecting plotly==4.14.3
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/1f/f6/bd3c17c8003b6641df1228e80e1acac97ed8402635e46c2571f8e1ef63af/plotly-4.14.3-py2.py3-none-any.whl (13.2 MB)
Collecting pysam==0.16.0.1
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/87/a1/73e80a7a873f3fb0e52d368a4343eb9882b737c932b95020d82251f1087e/pysam-0.16.0.1-cp36-cp36m-manylinux1_x86_64.whl (9.9 MB)
Collecting sklearn==0.0
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/1e/7a/dbb3be0ce9bd5c8b7e3d87328e79063f8b263b2b1bfa4774cb1147bfcd3f/sklearn-0.0.tar.gz (1.1 kB)
    ERROR: Command errored out with exit status 1:
     command: /public/home/zhangjl/miniconda3/envs/celescope/bin/python3 -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-install-3j4md9e2/sklearn_d2b3e3c0905a4090aa699b7cae76d9f3/setup.py'"'"'; __file__='"'"'/tmp/pip-install-3j4md9e2/sklearn_d2b3e3c0905a4090aa699b7cae76d9f3/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' egg_info --egg-base /tmp/pip-pip-egg-info-uzz2z17u
         cwd: /tmp/pip-install-3j4md9e2/sklearn_d2b3e3c0905a4090aa699b7cae76d9f3/
    Complete output (10 lines):
    Traceback (most recent call last):
      File "<string>", line 1, in <module>
      File "/biosoft/pythonmodule/lib/distribute-0.6.15-py2.6.egg/setuptools/__init__.py", line 2, in <module>
        from setuptools.extension import Extension, Library
      File "/biosoft/pythonmodule/lib/distribute-0.6.15-py2.6.egg/setuptools/extension.py", line 2, in <module>
        from setuptools.dist import _get_unpatched
      File "/biosoft/pythonmodule/lib/distribute-0.6.15-py2.6.egg/setuptools/dist.py", line 103
        except ValueError, e:
                         ^
    SyntaxError: invalid syntax
    ----------------------------------------
WARNING: Discarding https://mirrors.bfsu.edu.cn/pypi/web/packages/1e/7a/dbb3be0ce9bd5c8b7e3d87328e79063f8b263b2b1bfa4774cb1147bfcd3f/sklearn-0.0.tar.gz#sha256=e23001573aa194b834122d2b9562459bf5ae494a2d59ca6b8aa22c85a44c0e31 (from https://mirrors.bfsu.edu.cn/pypi/web/simple/sklearn/). Command errored out with exit status 1: python setup.py egg_info Check the logs for full command output.
Collecting celescope
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/4a/fe/421aff21e645a0f63a0c419e38c99dcda23647f2077003cfeed26e836543/celescope-1.3.0-py3-none-any.whl (2.5 MB)
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/20/75/d5c72eb5cdbd4d64edd11d0dd169f0e5ac31f89e051239192f87deadb990/celescope-1.2.0-py3-none-any.whl (2.5 MB)
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/b3/70/b8cb10e6b72b0c20f9f2d3df4f34216f7737496cfba47c7a39f5a9a38873/celescope-1.1.9-py3-none-any.whl (2.6 MB)
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/09/b7/1770c78eb9c018df0cc162916403b18120cb36a8c7016be0deac9d4de6a8/celescope-1.1.8-py3-none-any.whl (1.5 MB)
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/41/37/e5b4eac4b831d4578ec7a80f8caaf5deb789c6ef416b0c9f774a30fa9d65/celescope-1.1.7-py3-none-any.whl (1.5 MB)
Collecting scipy>=0.19.1
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/c8/89/63171228d5ced148f5ced50305c89e8576ffc695a90b58fe5bb602b910c2/scipy-1.5.4-cp36-cp36m-manylinux1_x86_64.whl (25.9 MB)
Collecting pandas==0.23.4
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/e1/d8/feeb346d41f181e83fba45224ab14a8d8af019b48af742e047f3845d8cff/pandas-0.23.4-cp36-cp36m-manylinux1_x86_64.whl (8.9 MB)
Collecting matplotlib>=2.2.2
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/09/03/b7b30fa81cb687d1178e085d0f01111ceaea3bf81f9330c937fb6f6c8ca0/matplotlib-3.3.4-cp36-cp36m-manylinux1_x86_64.whl (11.5 MB)
Collecting xopen>=0.5.0
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/fd/4a/8721495b3681c87251711a8fe0c7b0faa3620dee9096fd3458fc1b50b81f/xopen-1.1.0-py2.py3-none-any.whl (10 kB)
Collecting pytz>=2011k
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/70/94/784178ca5dd892a98f113cdd923372024dc04b8d40abe77ca76b5fb90ca6/pytz-2021.1-py2.py3-none-any.whl (510 kB)
Collecting python-dateutil>=2.5.0
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/d4/70/d60450c3dd48ef87586924207ae8907090de0b306af2bce5d134d78615cb/python_dateutil-2.8.1-py2.py3-none-any.whl (227 kB)
Collecting MarkupSafe>=2.0
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/08/dc/a5ed54fcc61f75343663ee702cbf69831dcec9b1a952ae21cf3d1fbc56ba/MarkupSafe-2.0.1-cp36-cp36m-manylinux2010_x86_64.whl (30 kB)
Collecting cycler>=0.10
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/f7/d2/e07d3ebb2bd7af696440ce7e754c59dd546ffe1bbe732c8ab68b9c834e61/cycler-0.10.0-py2.py3-none-any.whl (6.5 kB)
Collecting pyparsing!=2.0.4,!=2.1.2,!=2.1.6,>=2.0.3
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/8a/bb/488841f56197b13700afd5658fc279a2025a39e22449b7cf29864669b15d/pyparsing-2.4.7-py2.py3-none-any.whl (67 kB)
Collecting pillow>=6.2.0
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/89/d2/942af29f8494a1a3f4bc4f483d520f7c02ccae677f5f50cf76c6b3d827d8/Pillow-8.2.0-cp36-cp36m-manylinux1_x86_64.whl (3.0 MB)
Collecting kiwisolver>=1.0.1
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/a7/1b/cbd8ae738719b5f41592a12057ef5442e2ed5f5cb5451f8fc7e9f8875a1a/kiwisolver-1.3.1-cp36-cp36m-manylinux1_x86_64.whl (1.1 MB)
Collecting six
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/d9/5a/e7c31adbe875f2abbb91bd84cf2dc52d792b5a01506781dbcf25c91daf11/six-1.16.0-py2.py3-none-any.whl (11 kB)
Collecting isal>=0.3.0
  Using cached https://mirrors.bfsu.edu.cn/pypi/web/packages/23/9f/581cf93edf3d761929aa8c489fb2a749012b911b25273b8ad9e90bd4b32c/isal-0.10.0.tar.gz (677 kB)
  Installing build dependencies ... done
  Getting requirements to build wheel ... done
    Preparing wheel metadata ... done
Building wheels for collected packages: isal
  Building wheel for isal (PEP 517) ... error
  ERROR: Command errored out with exit status 1:
   command: /public/home/zhangjl/miniconda3/envs/celescope/bin/python3 /public/home/zhangjl/miniconda3/envs/celescope/lib/python3.6/site-packages/pip/_vendor/pep517/in_process/_in_process.py build_wheel /tmp/tmpop2isl70
       cwd: /tmp/pip-install-3j4md9e2/isal_1048acc1ed4847aea8e385ce11ca1254
  Complete output (39 lines):
  running bdist_wheel
  running build
  running build_py
  creating build
  creating build/lib.linux-x86_64-3.6
  creating build/lib.linux-x86_64-3.6/isal
  copying src/isal/igzip.py -> build/lib.linux-x86_64-3.6/isal
  copying src/isal/__init__.py -> build/lib.linux-x86_64-3.6/isal
  copying src/isal/version.pxd -> build/lib.linux-x86_64-3.6/isal
  copying src/isal/igzip_lib.pxd -> build/lib.linux-x86_64-3.6/isal
  copying src/isal/crc.pxd -> build/lib.linux-x86_64-3.6/isal
  copying src/isal/__init__.pxd -> build/lib.linux-x86_64-3.6/isal
  copying src/isal/_isal.pyx -> build/lib.linux-x86_64-3.6/isal
  copying src/isal/isal_zlib.pyx -> build/lib.linux-x86_64-3.6/isal
  copying src/isal/igzip_lib.pyx -> build/lib.linux-x86_64-3.6/isal
  copying src/isal/igzip_lib.pyi -> build/lib.linux-x86_64-3.6/isal
  copying src/isal/isal_zlib.pyi -> build/lib.linux-x86_64-3.6/isal
  copying src/isal/_isal.pyi -> build/lib.linux-x86_64-3.6/isal
  copying src/isal/py.typed -> build/lib.linux-x86_64-3.6/isal
  creating build/lib.linux-x86_64-3.6/isal/isa-l
  copying src/isal/isa-l/LICENSE -> build/lib.linux-x86_64-3.6/isal/isa-l
  copying src/isal/isa-l/README.md -> build/lib.linux-x86_64-3.6/isal/isa-l
  copying src/isal/isa-l/Release_notes.txt -> build/lib.linux-x86_64-3.6/isal/isa-l
  running build_ext
  cythoning src/isal/isal_zlib.pyx to src/isal/isal_zlib.c
  cythoning src/isal/igzip_lib.pyx to src/isal/igzip_lib.c
  cythoning src/isal/_isal.pyx to src/isal/_isal.c
  configure.ac:4: error: Autoconf version 2.69 or higher is required
  configure.ac:4: the top level
  autom4te: /usr/bin/m4 failed with exit status: 63
  aclocal: autom4te failed with exit status: 63
  autoreconf: aclocal failed with exit status: 63
  /tmp/pip-build-env-_jje2q6l/overlay/lib/python3.6/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /tmp/pip-install-3j4md9e2/isal_1048acc1ed4847aea8e385ce11ca1254/src/isal/isal_zlib.pyx
    tree = Parsing.p_module(s, pxd, full_module_name)
  /tmp/pip-build-env-_jje2q6l/overlay/lib/python3.6/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /tmp/pip-install-3j4md9e2/isal_1048acc1ed4847aea8e385ce11ca1254/src/isal/igzip_lib.pxd
    tree = Parsing.p_module(s, pxd, full_module_name)
  /tmp/pip-build-env-_jje2q6l/overlay/lib/python3.6/site-packages/Cython/Compiler/Main.py:369: FutureWarning: Cython directive 'language_level' not set, using 2 for now (Py2). This will change in a later release! File: /tmp/pip-install-3j4md9e2/isal_1048acc1ed4847aea8e385ce11ca1254/src/isal/_isal.pyx
    tree = Parsing.p_module(s, pxd, full_module_name)
  error: [Errno 2] No such file or directory: '/tmp/tmpnbj5z6lh/configure': '/tmp/tmpnbj5z6lh/configure'
  ----------------------------------------
  ERROR: Failed building wheel for isal
Failed to build isal
ERROR: Could not build wheels for isal which use PEP 517 and cannot be installed directly

issue to merge matrix files from different runs

For the output of cellranger, it is easy to merge matrix files from different samples, due to the same row names of the matrix (all the genes were used). Is it possible for celescope to generate this type of matrix files with the same row names (the same genes.tsv) for different runs?

mkref but get the empty "Homo_sapiens_ensembl_99.refFlat"

I try to use celescope to mkref, i download the same file and code in manual.
reference put this directory: "XX/software/CeleScope-1.10.0/database/"
in the step of "celescope rna star", i get error:

subprocess.CalledProcessError: Command 'picard -Xmx20G -XX:ParallelGCThreads=4 CollectRnaSeqMetrics I=.//B11T/03.star/B11T_Aligned.sortedByCoord.out.bam O=.//B11T/03.star/B11T_region.log REF_FLAT=XXX/software/CeleScope-1.10.0/database/Homo_sapiens_ensembl_99.refFlat STRAND=NONE VALIDATION_STRINGENCY=SILENT' returned non-zero exit status 1.

when i check the "Homo_sapiens_ensembl_99.refFlat" , and i found it's empty.

How to update CeleScope?

How to update celescope version to the latest version？
Do I need to re-clone the Git repository for each update, then create the environment and install the software?
I hope you can clarify this.Thank you very much.

bam file `CB` and `UB` tag

celescope version >= 1.1.8

bam files in 04.featureCounts/ has 4 tags
- CB: cell barcode
- UB: UMI
- GN: gene name
- GX: gene id

celescope version < 1.1.8

Use https://github.com/zhouyiqi91/CeleScope_scripts to add CB and UB tag.

get the 16-length cell barcode like 10X

Then the matrix after the count, can I get a 16-length cell barcode like 10X?

celescope tag FAQ

Split matrix

If you want to split the expression matrix of match scRNA-Seq library，you need to add --split_matrix in the multi_tag, e.g.

multi_tag \
 --mapfile ./tag.mapfile\
 --mod shell\
 --barcode_fasta ./smk_barcode.fa\
 --fq_pattern L25C15 \
 --split_matrix

The output matrices are in {sample}/06.split_tag

Undetermined and multiplet cells

tag assignment algorithm

You can control the value of UMI_min and SNR_min by changing the arguments in celescope tag count_tag
(https://github.com/singleron-RD/CeleScope/blob/master/docs/tag/count_tag.md)

The value of UMI_min and SNR_min is currently displayed in the log file of celescope tag count_tag and will be added to the report in subsequent releases.

SNP calling

Hi, Celescope team!

I got .bam file by following your tutorial. and I used bcftools to generate vcf file :
bcftools mpileup -Ou -f Homo_sapiens.GRCh38.dna.primary_assembly.fa A1_Aligned.sortedByCoord.out.bam | bcftools call -Ou -mv | bcftools filter -s LowQual -e '%QUAL<20 || DP>100' > A1.flt.vcf

The header of vcf file looks like this:
#CHROM POS ID REF ALT QUAL FILTER INFO FORMAT A1_Aligned.sortedByCoord.out.bam

and I generated .ped and .map files.

the map file looks like this:

I know the rsid of SNP can be annotated.

but the ped file is strange:

It looks like the result of a whole sample. How can I get the SNP result including each cell? eg. the result files contains cell UMI barcodes so I can recognize which variants come from which cells?

Thanks for any helps!!

Jingwen

v1.7.0: if mt_gene_list is not provided, it will cause an error in `celescope rna analysis`

Solution

Upgrade to v1.7.1

pip install --force-reinstall celescope==1.7.1

Where is fusion_genomeDir？

Hello, I want to use fusion pipeline, but I can't find the path of --fusion_genomeDir in multi_fusion(run_shell.sh). How can I get it? Thank you very much!

Losing many reads after polyA filtering "no polyT"

Good Morning,

I notice that the step of reads filtering removes a high number of reads due to "no polyT" so that the "no polyT reads number" is very high. Can you explain this and suggest how can I fix it?

Many thanks

[deprecated] conda install

关于最终得到的表达矩阵不是包含全部基因的问题？

你好！
感谢发明CeleScope这个工具，我在使用这个工具时有一个问题，我最终得到的Total Gene有17803个，然后得到表达矩阵的行（基因）只有17803行，感觉是去除了表达值为0的基因。但如何得到类似于10X cellranger那样的一个涉及全基因的表达矩阵呢，尽管有一些基因表达值为0，
这样做的目的有两个，一个是我添加了一些基因到参考基因组中，通过看全表达基因矩阵，我可以知道自己的基因添加有没有成功；另一个目的是，当合并多个数据时，行名是一致的，可以合并后再去除表达值为0的基因。
另外，可否提供单独运行count的代码示例，提供一个运行参考，谢谢！
真诚的希望得到您的帮助！

install conda_pkgs failed

hello, I had failed to install other relevant software listed in conda_pkgs.txt.
mamba create -n CeleScope -y --file conda_pkgs.txt

Would you give me some advises how to fix this bug? Thank you very much.
Best wishes

>>>>>>>>>>>>>>>>>>>>>> ERROR REPORT <<<<<<<<<<<<<<<<<<<<<<

Traceback (most recent call last):
  File "/bios-analysis10/miniconda3/lib/python3.9/site-packages/conda/exceptions.py", line 1080, in __call__
    return func(*args, **kwargs)
  File "/bios-analysis10/miniconda3/lib/python3.9/site-packages/mamba/mamba.py", line 927, in exception_converter
    raise e
  File "/bios-analysis10/miniconda3/lib/python3.9/site-packages/mamba/mamba.py", line 921, in exception_converter
    exit_code = _wrapped_main(*args, **kwargs)
  File "/bios-analysis10/miniconda3/lib/python3.9/site-packages/mamba/mamba.py", line 879, in _wrapped_main
    result = do_call(args, p)
  File "/bios-analysis10/miniconda3/lib/python3.9/site-packages/mamba/mamba.py", line 761, in do_call
    exit_code = create(args, parser)
  File "/bios-analysis10/miniconda3/lib/python3.9/site-packages/mamba/mamba.py", line 664, in create
    return install(args, parser, "create")
  File "/bios-analysis10/miniconda3/lib/python3.9/site-packages/mamba/mamba.py", line 613, in install
    downloaded = transaction.prompt(repos)
RuntimeError: Found incorrect download: libffi. Aborting

$ /bios-analysis10/miniconda3/bin/mamba create -n CeleScope -y --file conda_pkgs.txt

IndexError: list index out of range

你好，新年快乐，我再运行CeleScope这个R包管道的Cutadapt步骤时，出现了以下报错，不知道是怎么回事？
Analysis complete for SC003BM1_2.fq.gz
2021-02-09 14:07:46,090 - celescope.tools.barcode.barcode - INFO - fastqc done!
2021-02-09 14:07:46,090 - celescope.tools.report - INFO - generate report: rna barcode
2021-02-09 14:07:46,121 - celescope.tools.report - INFO - generate report done!
2021-02-09 14:07:46,146 - celescope.tools.barcode.barcode - INFO - done. time used: 1:09:22.840118
2021-02-09 14:07:46,146 - celescope.tools.cutadapt.cutadapt - INFO - start...
2021-02-09 14:07:46,152 - celescope.tools.cutadapt.cutadapt - INFO - cutadapt -a polyT=A{18} -a p5=AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC -n 2 -j 16 -m 20 --nextseq-trim=20 --overlap 10 -l 150 -o SC003BM1/02.cutadapt//SC003BM1_clean_2.fq.gz SC003BM1/01.barcode/SC003BM1_2.fq.gz
/data/singlecell/sc/COVID_19/BM1_3/SC003BM1_R1.fq.gz
/data/singlecell/sc/COVID_19/BM1_3/SC003BM1_R1.fq.gz
Traceback (most recent call last):
File "/home/zfzf/.local/bin/celescope", line 8, in
sys.exit(main())
File "/home/zfzf/.local/lib/python3.6/site-packages/celescope/celescope.py", line 566, in main
args.func(args)
File "/home/zfzf/.local/lib/python3.6/site-packages/celescope/rna/run.py", line 32, in run
cutadapt(args)
File "/home/zfzf/.local/lib/python3.6/site-packages/celescope/tools/utils.py", line 45, in wrapper
result = func(*args, **kwargs)
File "/home/zfzf/.local/lib/python3.6/site-packages/celescope/tools/cutadapt.py", line 75, in cutadapt
format_stat(args.outdir + '/cutadapt.log', args.sample)
File "/home/zfzf/.local/lib/python3.6/site-packages/celescope/tools/cutadapt.py", line 30, in format_stat
p_list.append({"item": attr[0], "value": attr[1]})
IndexError: list index out of range
我该如何解决这个错误呢？感谢您的帮助

有关中断任务之后的重新运行

您好，我在运行CeleScope软件的时候出现一些问题，想在此请教一下。
在该工具运行的时候因为各个步骤引用的有些工具对计算机硬件要求较高（尤其是内存），经常导致分析中断。再次使用工具时又要从分离barcode开始。单细胞分析的每一步都需要消耗很多的时间，不必要地消耗了时间。
是否有从中断的地方重新开始的方法呢？毕竟每一步运行完成后结果文件都已经保存在文件里了

Report template

Hello guys,

I'd like to include an improved scRNA Report template in the CeleScope pipeline and do not know where to exactly put it.

I know according to the /workflow/scRNA_analysis/workflow.wdl script, it a runs a program called scrna_report including these lines:

....
    elif [ "~{language}" = "English" ]; then
       cp ~{report_temp}  "~{targetFolder}/~{sample_name}_RNA_report/src/web_summary.html"
       **perl /opt/scRNA_Report/Report/Eng.Singleron/report.V2.0.1.pl** \
            -indir  ~{targetFolder} \
            -projectID ~{projectID} \
            -type SCOPEv1 \
            -prefix "~{sample_name}_RNA" \
            -sample ~{sample_name} \
            -rmd  /opt/scRNA_Report/Report/Eng.Singleron/report_summary.rmd \
            -pdf /opt/conda/bin/wkhtmltopdf \
            -species ~{species} \
            -rmarkdown  /opt/scRNA_Report/Report/rmarkdown
    fi
    cd  ~{targetFolder}
    tar -zcf "~{sample_name}_RNA_report.tar.gz" "~{sample_name}_RNA_report"
    tar -zcf "~{sample_name}_RNA_result.tar.gz" "~{sample_name}_RNA_result"

....

So I think the template is accessed by the perl script report.V2.0.1.pl in /opt/scRNA_Report/Report/Eng.Singleron.
But I can't find it neither on the GitHub, nor in my celescope environment. Can you help?

I other words - where is the report template ?

Best regards,
Thomas

pip install celescope timeout in China

Try domestic mirroring

which pip #  check pip version and environment 
pip install celescope   --default-timeout=100  -i https://pypi.tuna.tsinghua.edu.cn/simple   # You can try other mirrors

Add parameters to STAR

KeyError: 'matrix_dir' in count_tag[v1.8.0]

This bug is caused by not recognizing the newly introduced matrix suffix filtered_feature_bc_matrix when parsing match_dir.

genomeParameters.txt

After I prepared the hs_ensembl_99 folder according to the instructions on the official website, I successfully ran the test data. But when I run the personal data again, I get an error because I don't have genomeParameters.txt in the hs_ensembl_99 directory. Why is the file not generated? Or how can I fix this problem? thank you very much!

EXITING because of FATAL ERROR: could not open genome file /home/shpc_100611/hs_ensembl_99/genomeParameters.txt SOLUTION: check that the path to genome files, specified in --genomeDir is correct and the files are present, and have user read permsissions

The following is my analysis process
log.txt

How to create fusion_pos file?

I want to detect gene fusion in my single cell sample,so can I use the fusion function in the celescope?And how can I create or get the fusion_pos file when I use the mk_ref function in celescope fusion?

ModuleNotFoundError: No module named 'celescope.citeseq.Count_cite'

I follow the step in the document and when I run the code in Mac terminal:

celescope rna mkref \
 --genome_name Homo_sapiens_ensembl_99 \
 --fasta Homo_sapiens.GRCh38.dna.primary_assembly.fa \
 --gtf Homo_sapiens.GRCh38.99.gtf

it reports error as follows, how can I solve this issue?

(celescope) zhangzhongheng@x86_64-apple-darwin13 CeleScope % celescope rna mkref \
 --genome_name Homo_sapiens_ensembl_99 \
 --fasta Homo_sapiens.GRCh38.dna.primary_assembly.fa \
 --gtf Homo_sapiens.GRCh38.99.gtf
Traceback (most recent call last):
  File "/Users/zhangzhongheng/opt/anaconda3/lib/python3.8/site-packages/celescope/tools/utils.py", line 658, in find_step_module
    step_module = importlib.import_module(f"celescope.{assay}.{step}")
  File "/Users/zhangzhongheng/opt/anaconda3/lib/python3.8/importlib/__init__.py", line 127, in import_module
    return _bootstrap._gcd_import(name[level:], package, level)
  File "<frozen importlib._bootstrap>", line 1014, in _gcd_import
  File "<frozen importlib._bootstrap>", line 991, in _find_and_load
  File "<frozen importlib._bootstrap>", line 975, in _find_and_load_unlocked
  File "<frozen importlib._bootstrap>", line 671, in _load_unlocked
  File "<frozen importlib._bootstrap_external>", line 783, in exec_module
  File "<frozen importlib._bootstrap>", line 219, in _call_with_frames_removed
  File "/Users/zhangzhongheng/opt/anaconda3/lib/python3.8/site-packages/celescope/citeseq/count_cite.py", line 1, in <module>
    from .Count_cite import Count_cite
ModuleNotFoundError: No module named 'celescope.citeseq.Count_cite'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/zhangzhongheng/opt/anaconda3/lib/python3.8/site-packages/celescope/tools/utils.py", line 661, in find_step_module
    step_module = importlib.import_module(f"celescope.tools.{step}")
  File "/Users/zhangzhongheng/opt/anaconda3/lib/python3.8/importlib/__init__.py", line 127, in import_module
    return _bootstrap._gcd_import(name[level:], package, level)
  File "<frozen importlib._bootstrap>", line 1014, in _gcd_import
  File "<frozen importlib._bootstrap>", line 991, in _find_and_load
  File "<frozen importlib._bootstrap>", line 973, in _find_and_load_unlocked
ModuleNotFoundError: No module named 'celescope.tools.count_cite'

During handling of the above exception, another exception occurred:

Traceback (most recent call last):
  File "/Users/zhangzhongheng/opt/anaconda3/bin/celescope", line 8, in <module>
    sys.exit(main())
  File "/Users/zhangzhongheng/opt/anaconda3/lib/python3.8/site-packages/celescope/celescope.py", line 30, in main
    step_module = utils.find_step_module(assay, step)
  File "/Users/zhangzhongheng/opt/anaconda3/lib/python3.8/site-packages/celescope/tools/utils.py", line 663, in find_step_module
    module_path = init_module.IMPORT_DICT[step]
KeyError: 'count_cite'

NGS and TGS UMI length

What is the umi length of your second-generation sequencing technology and third-generation sequencing technology, and are they all 12bp?Thanks!

IndexError: list index out of range

I was running mapping_tag, then celescope showed that:
$ celescope tag mapping_tag --barcode_fasta tag_barcode.fasta --linker_fasta tag_linker.fasta --thread 20 --fq DK8XFAXP_R2.fq.gz --outdir TAG --sample K2
2022-04-24 23:16:41,832 - celescope.tag.mapping_tag.mapping_tag - INFO - start...
2022-04-24 23:16:41,833 - celescope.tools.barcode.parse_pattern - INFO - start...
2022-04-24 23:16:41,834 - celescope.tools.barcode.parse_pattern - INFO - done. time used: 0:00:00.000155
2022-04-24 23:16:41,834 - celescope.tag.mapping_tag.run - INFO - start...
2022-04-24 23:16:41,834 - celescope.tools.step._clean_up - INFO - start...
2022-04-24 23:16:41,835 - celescope.tools.step._render_html - INFO - start...
2022-04-24 23:16:42,115 - celescope.tools.step._render_html - INFO - done. time used: 0:00:00.279737
2022-04-24 23:16:42,115 - celescope.tools.step._clean_up - INFO - done. time used: 0:00:00.280861
Traceback (most recent call last):
File "/home/dell/.local/bin/celescope", line 8, in
sys.exit(main())
File "/home/dell/.local/lib/python3.8/site-packages/celescope/celescope.py", line 43, in main
args.func(args)
File "/home/dell/.local/lib/python3.8/site-packages/celescope/tools/utils.py", line 44, in wrapper
result = func(*args, **kwargs)
File "/home/dell/.local/lib/python3.8/site-packages/celescope/tag/mapping_tag.py", line 82, in mapping_tag
runner.run()
File "/home/dell/.local/lib/python3.8/site-packages/celescope/tools/utils.py", line 44, in wrapper
result = func(*args, **kwargs)
File "/home/dell/.local/lib/python3.8/site-packages/celescope/tag/mapping_tag.py", line 240, in run
self.process_read()
File "/home/dell/.local/lib/python3.8/site-packages/celescope/tag/mapping_tag.py", line 148, in process_read
umi = str(attr[1])
IndexError: list index out of range

How can I slove those problem?

Output error after runing "multi_tag"

Dir sir,
I am trying to split the sample index added to cells using the order "multi_tag", and the used tags were tag 8，9,10,11. However, after the command, the output was incomplete, despite the tag.fasta and tag.mapfile seems no problems. The log file of this command is as fellow:
(celescope) [zxia@localhost shell]$ bash sample_index.sh
2022-05-25 17:06:57,277 - celescope.tools.sample.sample - INFO - start...
2022-05-25 17:06:57,289 - celescope.tools.sample.run - INFO - start...
2022-05-25 17:06:57,289 - celescope.tools.barcode.parse_pattern - INFO - start...
2022-05-25 17:06:57,289 - celescope.tools.barcode.parse_pattern - INFO - done. time used: 0:00:00.000217
2022-05-25 17:06:57,306 - celescope.tools.barcode.get_mismatch_dict - INFO - start...
2022-05-25 17:06:57,308 - celescope.tools.barcode.get_mismatch_dict - INFO - done. time used: 0:00:00.002502
2022-05-25 17:06:57,310 - celescope.tools.barcode.get_mismatch_dict - INFO - start...
2022-05-25 17:06:57,321 - celescope.tools.barcode.get_mismatch_dict - INFO - done. time used: 0:00:00.010549
2022-05-25 17:06:57,321 - celescope.tools.barcode.parse_pattern - INFO - start...
2022-05-25 17:06:57,321 - celescope.tools.barcode.parse_pattern - INFO - done. time used: 0:00:00.000017
2022-05-25 17:06:57,322 - celescope.tools.barcode.get_mismatch_dict - INFO - start...
2022-05-25 17:06:57,325 - celescope.tools.barcode.get_mismatch_dict - INFO - done. time used: 0:00:00.002395
2022-05-25 17:06:57,326 - celescope.tools.barcode.get_mismatch_dict - INFO - start...
2022-05-25 17:06:57,366 - celescope.tools.barcode.get_mismatch_dict - INFO - done. time used: 0:00:00.040109
2022-05-25 17:06:57,367 - celescope.tools.barcode.parse_pattern - INFO - start...
2022-05-25 17:06:57,367 - celescope.tools.barcode.parse_pattern - INFO - done. time used: 0:00:00.000020
2022-05-25 17:06:57,369 - celescope.tools.barcode.get_mismatch_dict - INFO - start...
2022-05-25 17:06:57,380 - celescope.tools.barcode.get_mismatch_dict - INFO - done. time used: 0:00:00.011256
2022-05-25 17:06:57,382 - celescope.tools.barcode.get_mismatch_dict - INFO - start...
2022-05-25 17:06:57,422 - celescope.tools.barcode.get_mismatch_dict - INFO - done. time used: 0:00:00.040039
2022-05-25 17:06:57,423 - celescope.tools.barcode.check_chemistry - INFO - start...
/home/data/mybgi/Ischemic_2/Gex_lib/SI_lib_R1.fq.gz
2022-05-25 17:06:57,423 - celescope.tools.barcode.get_chemistry - INFO - start...
2022-05-25 17:06:57,487 - celescope.tools.barcode.get_chemistry - INFO - [('scopeV2.2.1', 8050), ('scopeV2.1.1', 1967)]
2022-05-25 17:06:57,487 - celescope.tools.barcode.get_chemistry - INFO - chemistry: scopeV2.2.1
2022-05-25 17:06:57,487 - celescope.tools.barcode.get_chemistry - INFO - done. time used: 0:00:00.064431
2022-05-25 17:06:57,487 - celescope.tools.barcode.check_chemistry - INFO - done. time used: 0:00:00.064540
2022-05-25 17:06:57,491 - celescope.tools.sample.run - INFO - done. time used: 0:00:00.201875
2022-05-25 17:06:57,491 - celescope.tools.step._clean_up - INFO - start...
2022-05-25 17:06:57,491 - celescope.tools.step._render_html - INFO - start...
2022-05-25 17:06:57,775 - celescope.tools.step._render_html - INFO - done. time used: 0:00:00.283790
2022-05-25 17:06:57,775 - celescope.tools.step._clean_up - INFO - done. time used: 0:00:00.284662
2022-05-25 17:06:57,776 - celescope.tools.sample.sample - INFO - done. time used: 0:00:00.497986
2022-05-25 17:06:59,474 - celescope.tools.barcode.barcode - INFO - start...
2022-05-25 17:06:59,486 - celescope.tools.barcode.parse_pattern - INFO - start...
2022-05-25 17:06:59,486 - celescope.tools.barcode.parse_pattern - INFO - done. time used: 0:00:00.000212
2022-05-25 17:06:59,495 - celescope.tools.barcode.get_mismatch_dict - INFO - start...
2022-05-25 17:06:59,497 - celescope.tools.barcode.get_mismatch_dict - INFO - done. time used: 0:00:00.002480
2022-05-25 17:06:59,499 - celescope.tools.barcode.get_mismatch_dict - INFO - start...
2022-05-25 17:06:59,509 - celescope.tools.barcode.get_mismatch_dict - INFO - done. time used: 0:00:00.010096
2022-05-25 17:06:59,509 - celescope.tools.barcode.parse_pattern - INFO - start...
2022-05-25 17:06:59,509 - celescope.tools.barcode.parse_pattern - INFO - done. time used: 0:00:00.000017
2022-05-25 17:06:59,510 - celescope.tools.barcode.get_mismatch_dict - INFO - start...
2022-05-25 17:06:59,513 - celescope.tools.barcode.get_mismatch_dict - INFO - done. time used: 0:00:00.002442
2022-05-25 17:06:59,514 - celescope.tools.barcode.get_mismatch_dict - INFO - start...
2022-05-25 17:06:59,555 - celescope.tools.barcode.get_mismatch_dict - INFO - done. time used: 0:00:00.040810
2022-05-25 17:06:59,556 - celescope.tools.barcode.parse_pattern - INFO - start...
2022-05-25 17:06:59,556 - celescope.tools.barcode.parse_pattern - INFO - done. time used: 0:00:00.000020
2022-05-25 17:06:59,557 - celescope.tools.barcode.get_mismatch_dict - INFO - start...
2022-05-25 17:06:59,569 - celescope.tools.barcode.get_mismatch_dict - INFO - done. time used: 0:00:00.011883
2022-05-25 17:06:59,571 - celescope.tools.barcode.get_mismatch_dict - INFO - start...
2022-05-25 17:06:59,610 - celescope.tools.barcode.get_mismatch_dict - INFO - done. time used: 0:00:00.039437
2022-05-25 17:06:59,611 - celescope.tools.barcode.check_chemistry - INFO - start...
/home/data/mybgi/Ischemic_2/Gex_lib/SI_lib_R1.fq.gz
2022-05-25 17:06:59,611 - celescope.tools.barcode.get_chemistry - INFO - start...
2022-05-25 17:06:59,658 - celescope.tools.barcode.get_chemistry - INFO - [('scopeV2.2.1', 8050), ('scopeV2.1.1', 1967)]
2022-05-25 17:06:59,658 - celescope.tools.barcode.get_chemistry - INFO - chemistry: scopeV2.2.1
2022-05-25 17:06:59,658 - celescope.tools.barcode.get_chemistry - INFO - done. time used: 0:00:00.047228
2022-05-25 17:06:59,658 - celescope.tools.barcode.check_chemistry - INFO - done. time used: 0:00:00.047331
2022-05-25 17:06:59,662 - celescope.tools.barcode.run - INFO - start...
2022-05-25 17:06:59,662 - celescope.tools.barcode.run - INFO - lowQual score: 0
2022-05-25 17:06:59,662 - celescope.tools.barcode.parse_pattern - INFO - start...
2022-05-25 17:06:59,662 - celescope.tools.barcode.parse_pattern - INFO - done. time used: 0:00:00.000021
2022-05-25 17:06:59,664 - celescope.tools.barcode.get_mismatch_dict - INFO - start...
2022-05-25 17:06:59,666 - celescope.tools.barcode.get_mismatch_dict - INFO - done. time used: 0:00:00.002343
2022-05-25 17:06:59,668 - celescope.tools.barcode.get_mismatch_dict - INFO - start...
2022-05-25 17:06:59,708 - celescope.tools.barcode.get_mismatch_dict - INFO - done. time used: 0:00:00.039685
2022-05-25 18:48:26,357 - celescope.tools.barcode.run - INFO - /home/data/mybgi/Ischemic_2/Gex_lib/SI_lib_R1.fq.gz finished.
2022-05-25 18:48:26,357 - celescope.tools.barcode.run - INFO - processed reads: 1,191,266,263. valid reads: 0.
2022-05-25 18:48:26,357 - celescope.tools.barcode.run - INFO - no polyT reads number : 1191266263
2022-05-25 18:48:26,357 - celescope.tools.barcode.run - INFO - low qual reads number: 0
2022-05-25 18:48:26,357 - celescope.tools.barcode.run - INFO - no_linker: 0
2022-05-25 18:48:26,357 - celescope.tools.barcode.run - INFO - no_barcode: 0
2022-05-25 18:48:26,357 - celescope.tools.barcode.run - INFO - corrected linker: 0
2022-05-25 18:48:26,357 - celescope.tools.barcode.run - INFO - corrected barcode: 0
2022-05-25 18:48:26,357 - celescope.tools.step._clean_up - INFO - start...
2022-05-25 18:48:26,358 - celescope.tools.step._render_html - INFO - start...
2022-05-25 18:48:26,667 - celescope.tools.step._render_html - INFO - done. time used: 0:00:00.309175
2022-05-25 18:48:26,668 - celescope.tools.step._clean_up - INFO - done. time used: 0:00:00.310214
Traceback (most recent call last):
File "/home/zxia/miniconda3/envs/celescope/bin/celescope", line 8, in
sys.exit(main())
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/celescope.py", line 38, in main
args.func(args)
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/utils.py", line 51, in wrapper
result = func(*args, **kwargs)
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/barcode.py", line 563, in barcode
runner.run()
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/utils.py", line 51, in wrapper
result = func(*args, **kwargs)
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/barcode.py", line 523, in run
'no valid reads found! please check the --chemistry parameter.')
Exception: no valid reads found! please check the --chemistry parameter.
2022-05-25 18:48:28,670 - celescope.tools.cutadapt.cutadapt - INFO - start...
2022-05-25 18:48:28,698 - celescope.tools.cutadapt.run - INFO - start...
2022-05-25 18:48:28,698 - celescope.tools.cutadapt.run - INFO - cutadapt -a polyT=A{18} -a p5=AGATCGGAAGAGCACACGTCTGAACTCCAGTCAC -n 2 -j 4 -m 20 --nextseq-trim=20 --overlap 10 -l 150 -o .//sample_index/02.cutadapt/sample_index_clean_2.fq .//sample_index/01.barcode/sample_index_2.fq
2022-05-25 18:48:28,797 - celescope.tools.step._clean_up - INFO - start...
2022-05-25 18:48:28,797 - celescope.tools.step._render_html - INFO - start...
2022-05-25 18:48:29,077 - celescope.tools.step._render_html - INFO - done. time used: 0:00:00.279351
2022-05-25 18:48:29,078 - celescope.tools.step._clean_up - INFO - done. time used: 0:00:00.281170
Traceback (most recent call last):
File "/home/zxia/miniconda3/envs/celescope/bin/celescope", line 8, in
sys.exit(main())
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/celescope.py", line 38, in main
args.func(args)
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/utils.py", line 51, in wrapper
result = func(*args, **kwargs)
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/cutadapt.py", line 149, in cutadapt
runner.run()
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/utils.py", line 51, in wrapper
result = func(*args, **kwargs)
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/cutadapt.py", line 143, in run
self.format_and_write_stat(cutadapt_log)
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/cutadapt.py", line 75, in format_and_write_stat
total_reads = p_list[0]
IndexError: list index out of range
2022-05-25 18:48:30,703 - celescope.tag.mapping_tag.mapping_tag - INFO - start...
2022-05-25 18:48:30,715 - celescope.tools.barcode.parse_pattern - INFO - start...
2022-05-25 18:48:30,715 - celescope.tools.barcode.parse_pattern - INFO - done. time used: 0:00:00.000204
2022-05-25 18:48:30,716 - celescope.tag.mapping_tag.run - INFO - start...
2022-05-25 18:48:30,730 - celescope.tag.mapping_tag.run - INFO - done. time used: 0:00:00.013526
2022-05-25 18:48:30,730 - celescope.tools.step._clean_up - INFO - start...
2022-05-25 18:48:30,731 - celescope.tools.step._render_html - INFO - start...
2022-05-25 18:48:31,014 - celescope.tools.step._render_html - INFO - done. time used: 0:00:00.283384
2022-05-25 18:48:31,015 - celescope.tools.step._clean_up - INFO - done. time used: 0:00:00.284522
2022-05-25 18:48:31,015 - celescope.tag.mapping_tag.mapping_tag - INFO - done. time used: 0:00:00.311302
Traceback (most recent call last):
File "/home/zxia/miniconda3/envs/celescope/bin/celescope", line 8, in
sys.exit(main())
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/celescope.py", line 38, in main
args.func(args)
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tag/count_tag.py", line 54, in count_tag
with Count_tag(args, display_title="Cells") as runner:
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tag/count_tag.py", line 87, in init
self.df_read_count = pd.read_csv(self.read_count_file, sep="\t", index_col=0)
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/pandas/io/parsers.py", line 688, in read_csv
return _read(filepath_or_buffer, kwds)
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/pandas/io/parsers.py", line 454, in _read
parser = TextFileReader(fp_or_buf, **kwds)
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/pandas/io/parsers.py", line 948, in init
self._make_engine(self.engine)
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/pandas/io/parsers.py", line 1180, in _make_engine
self._engine = CParserWrapper(self.f, **self.options)
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/pandas/io/parsers.py", line 2010, in init
self._reader = parsers.TextReader(src, **kwds)
File "pandas/_libs/parsers.pyx", line 540, in pandas._libs.parsers.TextReader.cinit
pandas.errors.EmptyDataError: No columns to parse from file
2022-05-25 18:48:34,281 - celescope.tag.analysis_tag.analysis_tag - INFO - start...
Traceback (most recent call last):
File "/home/zxia/miniconda3/envs/celescope/bin/celescope", line 8, in
sys.exit(main())
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/celescope.py", line 38, in main
args.func(args)
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/utils.py", line 51, in wrapper
result = func(*args, **kwargs)
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tag/analysis_tag.py", line 39, in analysis_tag
with Analysis_tag(args, display_title="Analysis") as runner:
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tag/analysis_tag.py", line 18, in init
self.df_tsne_tag = pd.read_csv(self.tsne_tag_file, sep='\t')
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/pandas/io/parsers.py", line 688, in read_csv
return _read(filepath_or_buffer, kwds)
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/pandas/io/parsers.py", line 454, in _read
parser = TextFileReader(fp_or_buf, **kwds)
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/pandas/io/parsers.py", line 948, in init
self._make_engine(self.engine)
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/pandas/io/parsers.py", line 1180, in _make_engine
self._engine = CParserWrapper(self.f, **self.options)
File "/home/zxia/miniconda3/envs/celescope/lib/python3.6/site-packages/pandas/io/parsers.py", line 2010, in init
self._reader = parsers.TextReader(src, **kwds)
File "pandas/_libs/parsers.pyx", line 382, in pandas._libs.parsers.TextReader.cinit
File "pandas/_libs/parsers.pyx", line 674, in pandas._libs.parsers.TextReader._setup_parser_source
FileNotFoundError: [Errno 2] No such file or directory: './/sample_index/04.count_tag/sample_index_tsne_tag.tsv'
2022-05-25 18:48:36,029 - celescope.tag.split_tag.run - INFO - start...
2022-05-25 18:48:36,029 - celescope.tag.split_tag.run - INFO - done. time used: 0:00:00.000002
2022-05-25 18:48:36,030 - celescope.tools.step._clean_up - INFO - start...
2022-05-25 18:48:36,031 - celescope.tools.step._render_html - INFO - start...
2022-05-25 18:48:36,311 - celescope.tools.step._render_html - INFO - done. time used: 0:00:00.280117
2022-05-25 18:48:36,311 - celescope.tools.step._clean_up - INFO - done. time used: 0:00:00.280994

To help you solve this issue, I also show you some related files:
(celescope) [zxia@localhost sample_tag]$ cat run.sh
source activate celescope
multi_tag
--mapfile /home/data/mybgi/Ischemic_2/celescope_count/sample_tag/tag.mapfile
--mod shell
--barcode_fasta /home/data/mybgi/Ischemic_2/celescope_count/sample_tag/tag.fasta
--fq_pattern L25C15

(celescope) [zxia@localhost sample_tag]$ cat tag.fasta

CLindex_TAG_8
ATACGCAGGGTCCGA
CLindex_TAG_9
AGCGGCATTTGGGAC
CLindex_TAG_10
TCGCCAGCCAAGTCT
CLindex_TAG_11
ACCAATGGCGCATGG
(celescope) [zxia@localhost sample_tag]$ cat tag.mapfile
##tag.mapfile
SI_lib /home/data/mybgi/Ischemic_2/Gex_lib sample_index /home/data/mybgi/Ischemic_2/celescope_count/shell/ischemic_gex

(celescope) [zxia@localhost shell]$ cat sample_index.sh
celescope tag sample --outdir .//sample_index/00.sample --sample sample_index --assay tag --thread 4 --chemistry auto --fq1 /home/data/mybgi/Ischemic_2/Gex_lib/SI_lib_R1.fq.gz
celescope tag barcode --outdir .//sample_index/01.barcode --sample sample_index --assay tag --thread 4 --chemistry auto --lowNum 2 --fq1 /home/data/mybgi/Ischemic_2/Gex_lib/SI_lib_R1.fq.gz --fq2 /home/data/mybgi/Ischemic_2/Gex_lib/SI_lib_R2.fq.gz
celescope tag cutadapt --outdir .//sample_index/02.cutadapt --sample sample_index --assay tag --thread 4 --minimum_length 20 --nextseq_trim 20 --overlap 10 --insert 150 --fq .//sample_index/01.barcode/sample_index_2.fq
celescope tag mapping_tag --outdir .//sample_index/03.mapping_tag --sample sample_index --assay tag --thread 4 --fq_pattern L25C15 --barcode_fasta /home/data/mybgi/Ischemic_2/celescope_count/sample_tag/tag.fasta --fq .//sample_index/02.cutadapt/sample_index_clean_2.fq
celescope tag count_tag --outdir .//sample_index/04.count_tag --sample sample_index --assay tag --thread 4 --UMI_min auto --dim 1 --SNR_min auto --coefficient 0.1 --match_dir /home/data/mybgi/Ischemic_2/celescope_count/shell/ischemic_gex --read_count_file .//sample_index/03.mapping_tag/sample_index_read_count.tsv
celescope tag analysis_tag --outdir .//sample_index/05.analysis_tag --sample sample_index --assay tag --thread 4 --match_dir /home/data/mybgi/Ischemic_2/celescope_count/shell/ischemic_gex --tsne_tag_file .//sample_index/04.count_tag/sample_index_tsne_tag.tsv
celescope tag split_tag --outdir .//sample_index/06.split_tag --sample sample_index --assay tag --thread 4 --match_dir /home/data/mybgi/Ischemic_2/celescope_count/shell/ischemic_gex --umi_tag_file .//sample_index/04.count_tag/sample_index_umi_tag.tsv

I am looking forward for your reply!

How to assemble only from the sequencing data of the immunomic library?

There is no fake_match_dir file, only immunosequencing data, can we assemble using FLV_trust4 ?

bam file has 0 byte

尊敬的开发者，
您好！由于分析需要，我需要bam文件进行其他分析。在得到A2.sh后，我把最后两句注释掉再运行的。

celescope rna sample --outdir .//A1/00.sample --sample A1 --assay rna --thread 6 --chemistry auto  --fq1 /home/lailab/disk/data/Ascite-1_R1.fq.gz 
celescope rna barcode --outdir .//A1/01.barcode --sample A1 --assay rna --thread 6 --lowNum 2 --chemistry auto  --fq1 /home/lailab/disk/data/Ascite-1_R1.fq.gz --fq2 /home/lailab/disk/data/Ascite-1_R2.fq.gz 
celescope rna cutadapt --outdir .//A1/02.cutadapt --sample A1 --assay rna --thread 6 --minimum_length 20 --nextseq_trim 20 --overlap 10 --insert 150  --fq .//A1/01.barcode/A1_2.fq 
celescope rna STAR --outdir .//A1/03.STAR --sample A1 --assay rna --thread 6 --genomeDir /home/lailab/software/CeleScope/celescope/celescope/hs/ensembl_99 --outFilterMultimapNmax 1 --starMem 30  --fq .//A1/02.cutadapt/A1_clean_2.fq 
celescope rna featureCounts --outdir .//A1/04.featureCounts --sample A1 --assay rna --thread 6 --gtf_type exon --genomeDir /home/lailab/software/CeleScope/celescope/celescope/hs/ensembl_99  --input .//A1/03.STAR/A1_Aligned.sortedByCoord.out.bam 
#celescope rna count --outdir .//A1/05.count --sample A1 --assay rna --thread 6 --genomeDir /home/lailab/software/CeleScope/celescope/celescope/hs/ensembl_99 --expected_cell_num 3000 --cell_calling_method auto  --bam .//A1/04.featureCounts/A1_name_sorted.bam --force_cell_num None 
#celescope rna analysis --outdir .//A1/06.analysis --sample A1 --assay rna --thread 6  --matrix_file .//A1/05.count/A1_matrix.tsv.gz

但是bam文件没有内容（前面的cutadapt结果都是有内容的），请问与我注释掉最后2句有关吗？或者需要调整什么参数呢？

另外我是用nohup sh A2.sh &将脚本挂到后台跑的，jobs -l 查看后没有在运行了，但是用top显示STAR还占着内存，请问是A2.sh里面的STAR吗

谢谢您！

FileNotFoundError: [Errno 2] No such file or directory: '/SGRNJ06/randd/USER/zhouyiqi/test/gtf_filter/celescope_genome.config'

An error is reported when running the test data, FileNotFoundError: [Errno 2] No such file or directory: '/SGRNJ06/randd/USER/zhouyiqi/test/gtf_filter/celescope_genome.config'
, the hs_ensembl_99 path has also been set when running personal data, but it still prompts that genomeDir is not set
help!!!!!

在05.count步骤出现问题，单独运行05.counts也会出现同样的问题

我在使用Celescope做单细胞数据分析的时候在05.counts的步骤出现了问题
这是控制台的TraceBack

2021-04-11 22:20:48,959 - celescope.tools.utils.glob_genomeDir - INFO - done. time used: 0:00:00.000434
2021-04-11 22:20:48,959 - celescope.tools.count.bam2table - INFO - start...
[E::idx_find_and_load] Could not retrieve index file for './XXX/03.STAR/XXX_Aligned.sortedByCoord.out.bam'
2021-04-11 22:40:48,612 - celescope.tools.count.bam2table - INFO - done. time used: 0:19:59.653030
2021-04-11 22:40:48,677 - celescope.tools.count.matrix_10X - INFO - start...
Traceback (most recent call last):
  File "/root/anaconda3/bin/celescope", line 33, in <module>
    sys.exit(load_entry_point('celescope==1.1.7', 'console_scripts', 'celescope')())
  File "/root/anaconda3/lib/python3.7/site-packages/celescope-1.1.7-py3.7.egg/celescope/celescope.py", line 566, in main
    args.func(args)
  File "/root/anaconda3/lib/python3.7/site-packages/celescope-1.1.7-py3.7.egg/celescope/tools/utils.py", line 45, in wrapper
    result = func(*args, **kwargs)
  File "/root/anaconda3/lib/python3.7/site-packages/celescope-1.1.7-py3.7.egg/celescope/tools/count.py", line 389, in count
    matrix_10X(df, outdir, sample, gtf_file, dir_name=dir_name)
  File "/root/anaconda3/lib/python3.7/site-packages/celescope-1.1.7-py3.7.egg/celescope/tools/utils.py", line 45, in wrapper
    result = func(*args, **kwargs)
  File "/root/anaconda3/lib/python3.7/site-packages/celescope-1.1.7-py3.7.egg/celescope/tools/count.py", line 228, in matrix_10X
    mtx= coo_matrix((df_UMI.UMI, (df_UMI.index.labels[0], df_UMI.index.labels[1])))
AttributeError: 'MultiIndex' object has no attribute 'labels'

我没有太多的Python基础，不太明白这意味着什么，希望您能帮我看看问题要如何解决。

[deprecated] Detect known fusion positions

dynascope question

Hi bro. Do I need to construct a reference genome for Dynascope's Multi_? What species does the test data correspond to？

failing in featurecounts

when i was running the module of featurecounts, I found the following issue:

Load annotation file 10x_genes.gtf ...                                     ||
Failed to open the annotation file /public/home/zhangjl/CQ/scRNAseq/rawdata/nebc/CeleScope/ref//public/home/zhangjl/CQ/scRNAseq/rawdata/nebc/CeleScope/ref/10x_genes.gtf, or its format is incorrect, or it contains no 'exon' features.
Traceback (most recent call last):
  File "/public/home/zhangjl/miniconda3/envs/celescope/bin/celescope", line 8, in <module>
    sys.exit(main())
  File "/public/home/zhangjl/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/celescope.py", line 37, in main
    args.func(args)
  File "/public/home/zhangjl/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/utils.py", line 50, in wrapper
    result = func(*args, **kwargs)
  File "/public/home/zhangjl/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/featureCounts.py", line 142, in featureCounts
    featureCounts_obj.run()
  File "/public/home/zhangjl/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/featureCounts.py", line 107, in run
    self.run_featureCounts()
  File "/public/home/zhangjl/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/utils.py", line 50, in wrapper
    result = func(*args, **kwargs)
  File "/public/home/zhangjl/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/featureCounts.py", line 92, in run_featureCounts
    subprocess.check_call(cmd, shell=True)
  File "/public/home/zhangjl/miniconda3/envs/celescope/lib/python3.6/subprocess.py", line 291, in check_call
    raise CalledProcessError(retcode, cmd)
subprocess.CalledProcessError: Command 'featureCounts -s 1 -a /public/home/zhangjl/CQ/scRNAseq/rawdata/nebc/CeleScope/ref//public/home/zhangjl/CQ/scRNAseq/rawdata/nebc/CeleScope/ref/10x_genes.gtf -o .//BBc1/04.featureCounts/BBc1 -R BAM -T 8 -t exon .//BBc1/03.star/BBc1_Aligned.sortedByCoord.out.bam ' returned non-zero exit status 255.

by the way,I used the gtf downloaded from 10x rather than recommanded hs_ensembl_99,and I did not found any problems when I was running the STAR module.

pip install celescope failed!

after python version upgraded to 3.9.0, there is an error below!
ERROR: Could not build wheels for sorted-nearest, pyrle, which is required to install pyproject.toml-based projects

About celescope RNA barcode

Hello, please ask a question about the celescope RNA barcode instruction. My instructions are as follows: celescope RNA barcode -- chemistry customized -- pattern C8U6C8U6T10 -- whitelist cellbarcode_ list. Txt --sample wt --fq1wt_ R1. fastq --fq2 WT_ R2. fastq --gzip --thread 20 --outdir 1-Barcode_ Out /, where cellbarcode_ list. Txt file is the sequence of 8bp barcode1 + 8bp barcode2, a total of 16bp long, but an error is reported, as follows:

how to fix this?

No file "BCR_UMI_count_filtered.tsv"

BCR data analysis pipline was broken becasuse of the lost file "BCR_UMI_count_filtered.tsv".

Because of the data was from BGI platform, and in this way， ‘--not_consensus’ was added to the file

Will this be the question?

waitting for any words, thanks so much!

auto chemistry detection failed!

Dear developer,
I have managed to obtain the shell. But when I was running sh ./shell/BBc1.sh,it prompted an issue

....
 1, 'CGCATGGACACGCTTTTTTTTTTTTTTTTTTTA': 1, 'GATGCAAAAGTACTTTTTTTTTTTTTTTTTTTA': 1, 'GGTCTCAGGGGTGTTTTTTTTTTTTTTTTTTTA': 1, 'ATTTTGGCGTGAGTTTTTTTTTTTTTTTTTTTT': 1})
Traceback (most recent call last):
  File "/public/home/zhangjl/miniconda3/envs/celescope/bin/celescope", line 8, in <module>
    sys.exit(main())
  File "/public/home/zhangjl/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/celescope.py", line 37, in main
    args.func(args)
  File "/public/home/zhangjl/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/utils.py", line 50, in wrapper
    result = func(*args, **kwargs)
  File "/public/home/zhangjl/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/sample.py", line 29, in sample
    chemistry = ch.check_chemistry()
  File "/public/home/zhangjl/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/utils.py", line 50, in wrapper
    result = func(*args, **kwargs)
  File "/public/home/zhangjl/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/barcode.py", line 187, in check_chemistry
    chemistry = self.get_chemistry(fastq1)
  File "/public/home/zhangjl/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/utils.py", line 50, in wrapper
    result = func(*args, **kwargs)
  File "/public/home/zhangjl/miniconda3/envs/celescope/lib/python3.6/site-packages/celescope/tools/barcode.py", line 241, in get_chemistry
    raise Exception('auto chemistry detection failed!')
Exception: auto chemistry detection failed!

I think it is due to the parameter of --chemistry auto,but I dont know how to dealth with it...
The version of my celescope was

celescope --version
1.3.1

WARNING: Retrying (Retry(total=0, connect=None, read=None, redirect=None, status=None)) after connection broken by 'ProxyError('Cannot connect to proxy.', timeout('_ssl.c:1106: The handshake operation timed out'))': /simple/celescope/
ERROR: Could not find a version that satisfies the requirement celescope
ERROR: No matching distribution found for celescope

然后我换了另一个服务器安装，出现报错：

  Building wheel for cutadapt (setup.py) ... error
  ERROR: Command errored out with exit status 1:
   command: /home/lailab/miniconda3/envs/scrna/bin/python3.9 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-install-y5acgmq1/cutadapt_45afcc8e39d244239268e5ef751730b0/setup.py'"'"'; __file__='"'"'/tmp/pip-install-y5acgmq1/cutadapt_45afcc8e39d244239268e5ef751730b0/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-kinwpmv2
       cwd: /tmp/pip-install-y5acgmq1/cutadapt_45afcc8e39d244239268e5ef751730b0/
  Complete output (150 lines):
  running bdist_wheel
  running build
  running build_py
  creating build
  creating build/lib.linux-x86_64-3.9
  creating build/lib.linux-x86_64-3.9/cutadapt
  copying src/cutadapt/seqio.py -> build/lib.linux-x86_64-3.9/cutadapt
  copying src/cutadapt/modifiers.py -> build/lib.linux-x86_64-3.9/cutadapt
  copying src/cutadapt/compat.py -> build/lib.linux-x86_64-3.9/cutadapt
  copying src/cutadapt/align.py -> build/lib.linux-x86_64-3.9/cutadapt
  copying src/cutadapt/qualtrim.py -> build/lib.linux-x86_64-3.9/cutadapt
  copying src/cutadapt/_version.py -> build/lib.linux-x86_64-3.9/cutadapt
  copying src/cutadapt/adapters.py -> build/lib.linux-x86_64-3.9/cutadapt
  copying src/cutadapt/filters.py -> build/lib.linux-x86_64-3.9/cutadapt
  copying src/cutadapt/__main__.py -> build/lib.linux-x86_64-3.9/cutadapt
  copying src/cutadapt/__init__.py -> build/lib.linux-x86_64-3.9/cutadapt
  copying src/cutadapt/report.py -> build/lib.linux-x86_64-3.9/cutadapt
  copying src/cutadapt/pipeline.py -> build/lib.linux-x86_64-3.9/cutadapt
  copying src/cutadapt/colorspace.py -> build/lib.linux-x86_64-3.9/cutadapt
  UPDATING build/lib.linux-x86_64-3.9/cutadapt/_version.py
  set build/lib.linux-x86_64-3.9/cutadapt/_version.py to '1.17'
  running build_ext
  building 'cutadapt._align' extension
  creating build/temp.linux-x86_64-3.9
  creating build/temp.linux-x86_64-3.9/src
  creating build/temp.linux-x86_64-3.9/src/cutadapt
  gcc -pthread -B /home/lailab/miniconda3/envs/scrna/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/lailab/miniconda3/envs/scrna/include -fPIC -O2 -isystem /home/lailab/miniconda3/envs/scrna/include -fPIC -I/home/lailab/miniconda3/envs/scrna/include/python3.9 -c src/cutadapt/_align.c -o build/temp.linux-x86_64-3.9/src/cutadapt/_align.o
  src/cutadapt/_align.c: In function ‘__Pyx_modinit_type_init_code’:
  src/cutadapt/_align.c:6178:39: error: ‘PyTypeObject {aka struct _typeobject}’ has no member named ‘tp_print’
     __pyx_type_8cutadapt_6_align_Aligner.tp_print = 0;
                                         ^
  src/cutadapt/_align.c:6186:59: error: ‘PyTypeObject {aka struct _typeobject}’ has no member named ‘tp_print’
     __pyx_type_8cutadapt_6_align___pyx_scope_struct____str__.tp_print = 0;
                                                             ^
  src/cutadapt/_align.c:6192:60: error: ‘PyTypeObject {aka struct _typeobject}’ has no member named ‘tp_print’
     __pyx_type_8cutadapt_6_align___pyx_scope_struct_1_genexpr.tp_print = 0;
                                                              ^
  src/cutadapt/_align.c:6198:60: error: ‘PyTypeObject {aka struct _typeobject}’ has no member named ‘tp_print’
     __pyx_type_8cutadapt_6_align___pyx_scope_struct_2_genexpr.tp_print = 0;
                                                              ^
  src/cutadapt/_align.c: In function ‘__Pyx_ParseOptionalKeywords’:
  src/cutadapt/_align.c:7082:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
                       (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 :
                       ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from src/cutadapt/_align.c:17:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
   static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
                            ^
  src/cutadapt/_align.c:7082:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations]
                       (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 :
                       ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from src/cutadapt/_align.c:17:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here
   Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode(
                                               ^
  src/cutadapt/_align.c:7082:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
                       (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 :
                       ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from src/cutadapt/_align.c:17:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
   static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
                            ^
  src/cutadapt/_align.c:7082:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
                       (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 :
                       ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from src/cutadapt/_align.c:17:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
   static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
                            ^
  src/cutadapt/_align.c:7082:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations]
                       (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 :
                       ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from src/cutadapt/_align.c:17:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here
   Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode(
                                               ^
  src/cutadapt/_align.c:7082:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
                       (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 :
                       ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from src/cutadapt/_align.c:17:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
   static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
                            ^
  src/cutadapt/_align.c:7098:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
                           (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 :
                           ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from src/cutadapt/_align.c:17:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
   static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
                            ^
  src/cutadapt/_align.c:7098:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations]
                           (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 :
                           ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from src/cutadapt/_align.c:17:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here
   Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode(
                                               ^
  src/cutadapt/_align.c:7098:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
                           (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 :
                           ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from src/cutadapt/_align.c:17:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
   static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
                            ^
  src/cutadapt/_align.c:7098:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
                           (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 :
                           ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from src/cutadapt/_align.c:17:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
   static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
                            ^
  src/cutadapt/_align.c:7098:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations]
                           (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 :
                           ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from src/cutadapt/_align.c:17:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here
   Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode(
                                               ^
  src/cutadapt/_align.c:7098:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
                           (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 :
                           ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from src/cutadapt/_align.c:17:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
   static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
                            ^
  error: command '/usr/bin/gcc' failed with exit code 1
  ----------------------------------------
  ERROR: Failed building wheel for cutadapt
  Running setup.py clean for cutadapt
  Building wheel for pandas (setup.py) ... error
  ERROR: Command errored out with exit status 1:
   command: /home/lailab/miniconda3/envs/scrna/bin/python3.9 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-install-y5acgmq1/pandas_96412d7fcf2347fe8e58174ad497cb89/setup.py'"'"'; __file__='"'"'/tmp/pip-install-y5acgmq1/pandas_96412d7fcf2347fe8e58174ad497cb89/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' bdist_wheel -d /tmp/pip-wheel-2zvwjqqm
       cwd: /tmp/pip-install-y5acgmq1/pandas_96412d7fcf2347fe8e58174ad497cb89/
  Complete output (841 lines):
  running bdist_wheel
  running build
  running build_py
  creating build
  creating build/lib.linux-x86_64-3.9
  creating build/lib.linux-x86_64-3.9/pandas
  copying pandas/_version.py -> build/lib.linux-x86_64-3.9/pandas
  copying pandas/parser.py -> build/lib.linux-x86_64-3.9/pandas
  copying pandas/conftest.py -> build/lib.linux-x86_64-3.9/pandas
  copying pandas/testing.py -> build/lib.linux-x86_64-3.9/pandas
  copying pandas/__init__.py -> build/lib.linux-x86_64-3.9/pandas
  copying pandas/lib.py -> build/lib.linux-x86_64-3.9/pandas
  copying pandas/tslib.py -> build/lib.linux-x86_64-3.9/pandas
  copying pandas/json.py -> build/lib.linux-x86_64-3.9/pandas
  creating build/lib.linux-x86_64-3.9/pandas/_libs
  copying pandas/_libs/__init__.py -> build/lib.linux-x86_64-3.9/pandas/_libs
  creating build/lib.linux-x86_64-3.9/pandas/types
  copying pandas/types/concat.py -> build/lib.linux-x86_64-3.9/pandas/types
  copying pandas/types/common.py -> build/lib.linux-x86_64-3.9/pandas/types
  copying pandas/types/__init__.py -> build/lib.linux-x86_64-3.9/pandas/types
  creating build/lib.linux-x86_64-3.9/pandas/util
  copying pandas/util/decorators.py -> build/lib.linux-x86_64-3.9/pandas/util
  copying pandas/util/_doctools.py -> build/lib.linux-x86_64-3.9/pandas/util
  copying pandas/util/testing.py -> build/lib.linux-x86_64-3.9/pandas/util
  copying pandas/util/__init__.py -> build/lib.linux-x86_64-3.9/pandas/util
  copying pandas/util/_validators.py -> build/lib.linux-x86_64-3.9/pandas/util
  copying pandas/util/_tester.py -> build/lib.linux-x86_64-3.9/pandas/util
  copying pandas/util/_print_versions.py -> build/lib.linux-x86_64-3.9/pandas/util
  copying pandas/util/_test_decorators.py -> build/lib.linux-x86_64-3.9/pandas/util
  copying pandas/util/_decorators.py -> build/lib.linux-x86_64-3.9/pandas/util
  copying pandas/util/_depr_module.py -> build/lib.linux-x86_64-3.9/pandas/util
  creating build/lib.linux-x86_64-3.9/pandas/errors
  copying pandas/errors/__init__.py -> build/lib.linux-x86_64-3.9/pandas/errors
  creating build/lib.linux-x86_64-3.9/pandas/tools
  copying pandas/tools/plotting.py -> build/lib.linux-x86_64-3.9/pandas/tools
  copying pandas/tools/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tools
  copying pandas/tools/merge.py -> build/lib.linux-x86_64-3.9/pandas/tools
  creating build/lib.linux-x86_64-3.9/pandas/computation
  copying pandas/computation/__init__.py -> build/lib.linux-x86_64-3.9/pandas/computation
  copying pandas/computation/expressions.py -> build/lib.linux-x86_64-3.9/pandas/computation
  creating build/lib.linux-x86_64-3.9/pandas/formats
  copying pandas/formats/style.py -> build/lib.linux-x86_64-3.9/pandas/formats
  copying pandas/formats/__init__.py -> build/lib.linux-x86_64-3.9/pandas/formats
  creating build/lib.linux-x86_64-3.9/pandas/api
  copying pandas/api/__init__.py -> build/lib.linux-x86_64-3.9/pandas/api
  creating build/lib.linux-x86_64-3.9/pandas/io
  copying pandas/io/gbq.py -> build/lib.linux-x86_64-3.9/pandas/io
  copying pandas/io/parsers.py -> build/lib.linux-x86_64-3.9/pandas/io
  copying pandas/io/excel.py -> build/lib.linux-x86_64-3.9/pandas/io
  copying pandas/io/feather_format.py -> build/lib.linux-x86_64-3.9/pandas/io
  copying pandas/io/clipboards.py -> build/lib.linux-x86_64-3.9/pandas/io
  copying pandas/io/pytables.py -> build/lib.linux-x86_64-3.9/pandas/io
  copying pandas/io/pickle.py -> build/lib.linux-x86_64-3.9/pandas/io
  copying pandas/io/s3.py -> build/lib.linux-x86_64-3.9/pandas/io
  copying pandas/io/common.py -> build/lib.linux-x86_64-3.9/pandas/io
  copying pandas/io/__init__.py -> build/lib.linux-x86_64-3.9/pandas/io
  copying pandas/io/date_converters.py -> build/lib.linux-x86_64-3.9/pandas/io
  copying pandas/io/sql.py -> build/lib.linux-x86_64-3.9/pandas/io
  copying pandas/io/html.py -> build/lib.linux-x86_64-3.9/pandas/io
  copying pandas/io/api.py -> build/lib.linux-x86_64-3.9/pandas/io
  copying pandas/io/stata.py -> build/lib.linux-x86_64-3.9/pandas/io
  copying pandas/io/parquet.py -> build/lib.linux-x86_64-3.9/pandas/io
  copying pandas/io/packers.py -> build/lib.linux-x86_64-3.9/pandas/io
  creating build/lib.linux-x86_64-3.9/pandas/compat
  copying pandas/compat/pickle_compat.py -> build/lib.linux-x86_64-3.9/pandas/compat
  copying pandas/compat/chainmap.py -> build/lib.linux-x86_64-3.9/pandas/compat
  copying pandas/compat/__init__.py -> build/lib.linux-x86_64-3.9/pandas/compat
  copying pandas/compat/chainmap_impl.py -> build/lib.linux-x86_64-3.9/pandas/compat
  creating build/lib.linux-x86_64-3.9/pandas/plotting
  copying pandas/plotting/_compat.py -> build/lib.linux-x86_64-3.9/pandas/plotting
  copying pandas/plotting/_style.py -> build/lib.linux-x86_64-3.9/pandas/plotting
  copying pandas/plotting/_tools.py -> build/lib.linux-x86_64-3.9/pandas/plotting
  copying pandas/plotting/_core.py -> build/lib.linux-x86_64-3.9/pandas/plotting
  copying pandas/plotting/_timeseries.py -> build/lib.linux-x86_64-3.9/pandas/plotting
  copying pandas/plotting/__init__.py -> build/lib.linux-x86_64-3.9/pandas/plotting
  copying pandas/plotting/_misc.py -> build/lib.linux-x86_64-3.9/pandas/plotting
  copying pandas/plotting/_converter.py -> build/lib.linux-x86_64-3.9/pandas/plotting
  creating build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/test_downstream.py -> build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/test_common.py -> build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/test_algos.py -> build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/test_window.py -> build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/test_panel.py -> build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/test_take.py -> build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/test_nanops.py -> build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/test_errors.py -> build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/test_expressions.py -> build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/test_resample.py -> build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/test_register_accessor.py -> build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/test_strings.py -> build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/test_multilevel.py -> build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/test_join.py -> build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/test_sorting.py -> build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/test_lib.py -> build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/test_config.py -> build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/test_compat.py -> build/lib.linux-x86_64-3.9/pandas/tests
  copying pandas/tests/test_base.py -> build/lib.linux-x86_64-3.9/pandas/tests
  creating build/lib.linux-x86_64-3.9/pandas/tseries
  copying pandas/tseries/converter.py -> build/lib.linux-x86_64-3.9/pandas/tseries
  copying pandas/tseries/plotting.py -> build/lib.linux-x86_64-3.9/pandas/tseries
  copying pandas/tseries/holiday.py -> build/lib.linux-x86_64-3.9/pandas/tseries
  copying pandas/tseries/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tseries
  copying pandas/tseries/offsets.py -> build/lib.linux-x86_64-3.9/pandas/tseries
  copying pandas/tseries/frequencies.py -> build/lib.linux-x86_64-3.9/pandas/tseries
  copying pandas/tseries/api.py -> build/lib.linux-x86_64-3.9/pandas/tseries
  creating build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/config_init.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/nanops.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/accessor.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/datetools.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/algorithms.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/generic.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/window.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/sorting.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/base.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/indexing.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/panel.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/common.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/series.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/ops.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/missing.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/strings.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/internals.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/api.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/frame.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/config.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/apply.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/categorical.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/resample.py -> build/lib.linux-x86_64-3.9/pandas/core
  copying pandas/core/index.py -> build/lib.linux-x86_64-3.9/pandas/core
  creating build/lib.linux-x86_64-3.9/pandas/_libs/tslibs
  copying pandas/_libs/tslibs/__init__.py -> build/lib.linux-x86_64-3.9/pandas/_libs/tslibs
  creating build/lib.linux-x86_64-3.9/pandas/api/types
  copying pandas/api/types/__init__.py -> build/lib.linux-x86_64-3.9/pandas/api/types
  creating build/lib.linux-x86_64-3.9/pandas/api/extensions
  copying pandas/api/extensions/__init__.py -> build/lib.linux-x86_64-3.9/pandas/api/extensions
  creating build/lib.linux-x86_64-3.9/pandas/io/clipboard
  copying pandas/io/clipboard/exceptions.py -> build/lib.linux-x86_64-3.9/pandas/io/clipboard
  copying pandas/io/clipboard/windows.py -> build/lib.linux-x86_64-3.9/pandas/io/clipboard
  copying pandas/io/clipboard/clipboards.py -> build/lib.linux-x86_64-3.9/pandas/io/clipboard
  copying pandas/io/clipboard/__init__.py -> build/lib.linux-x86_64-3.9/pandas/io/clipboard
  creating build/lib.linux-x86_64-3.9/pandas/io/msgpack
  copying pandas/io/msgpack/exceptions.py -> build/lib.linux-x86_64-3.9/pandas/io/msgpack
  copying pandas/io/msgpack/_version.py -> build/lib.linux-x86_64-3.9/pandas/io/msgpack
  copying pandas/io/msgpack/__init__.py -> build/lib.linux-x86_64-3.9/pandas/io/msgpack
  creating build/lib.linux-x86_64-3.9/pandas/io/formats
  copying pandas/io/formats/format.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
  copying pandas/io/formats/console.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
  copying pandas/io/formats/latex.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
  copying pandas/io/formats/csvs.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
  copying pandas/io/formats/excel.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
  copying pandas/io/formats/style.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
  copying pandas/io/formats/printing.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
  copying pandas/io/formats/css.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
  copying pandas/io/formats/__init__.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
  copying pandas/io/formats/html.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
  copying pandas/io/formats/terminal.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
  creating build/lib.linux-x86_64-3.9/pandas/io/json
  copying pandas/io/json/normalize.py -> build/lib.linux-x86_64-3.9/pandas/io/json
  copying pandas/io/json/__init__.py -> build/lib.linux-x86_64-3.9/pandas/io/json
  copying pandas/io/json/json.py -> build/lib.linux-x86_64-3.9/pandas/io/json
  copying pandas/io/json/table_schema.py -> build/lib.linux-x86_64-3.9/pandas/io/json
  creating build/lib.linux-x86_64-3.9/pandas/io/sas
  copying pandas/io/sas/sas_xport.py -> build/lib.linux-x86_64-3.9/pandas/io/sas
  copying pandas/io/sas/sas_constants.py -> build/lib.linux-x86_64-3.9/pandas/io/sas
  copying pandas/io/sas/__init__.py -> build/lib.linux-x86_64-3.9/pandas/io/sas
  copying pandas/io/sas/sasreader.py -> build/lib.linux-x86_64-3.9/pandas/io/sas
  copying pandas/io/sas/sas7bdat.py -> build/lib.linux-x86_64-3.9/pandas/io/sas
  creating build/lib.linux-x86_64-3.9/pandas/compat/numpy
  copying pandas/compat/numpy/function.py -> build/lib.linux-x86_64-3.9/pandas/compat/numpy
  copying pandas/compat/numpy/__init__.py -> build/lib.linux-x86_64-3.9/pandas/compat/numpy
  creating build/lib.linux-x86_64-3.9/pandas/tests/internals
  copying pandas/tests/internals/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/internals
  copying pandas/tests/internals/test_internals.py -> build/lib.linux-x86_64-3.9/pandas/tests/internals
  creating build/lib.linux-x86_64-3.9/pandas/tests/groupby
  copying pandas/tests/groupby/test_categorical.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
  copying pandas/tests/groupby/test_groupby.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
  copying pandas/tests/groupby/test_whitelist.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
  copying pandas/tests/groupby/test_nth.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
  copying pandas/tests/groupby/test_index_as_string.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
  copying pandas/tests/groupby/test_filters.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
  copying pandas/tests/groupby/test_function.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
  copying pandas/tests/groupby/test_value_counts.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
  copying pandas/tests/groupby/test_rank.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
  copying pandas/tests/groupby/test_apply.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
  copying pandas/tests/groupby/test_counting.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
  copying pandas/tests/groupby/test_grouping.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
  copying pandas/tests/groupby/test_bin_groupby.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
  copying pandas/tests/groupby/conftest.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
  copying pandas/tests/groupby/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
  copying pandas/tests/groupby/test_transform.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
  copying pandas/tests/groupby/test_timegrouper.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
  creating build/lib.linux-x86_64-3.9/pandas/tests/categorical
  copying pandas/tests/categorical/test_dtypes.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
  copying pandas/tests/categorical/test_constructors.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
  copying pandas/tests/categorical/test_missing.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
  copying pandas/tests/categorical/test_algos.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
  copying pandas/tests/categorical/test_warnings.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
  copying pandas/tests/categorical/conftest.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
  copying pandas/tests/categorical/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
  copying pandas/tests/categorical/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
  copying pandas/tests/categorical/test_analytics.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
  copying pandas/tests/categorical/test_operators.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
  copying pandas/tests/categorical/test_subclass.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
  copying pandas/tests/categorical/test_api.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
  copying pandas/tests/categorical/test_sorting.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
  copying pandas/tests/categorical/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
  copying pandas/tests/categorical/test_repr.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
  creating build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_dtypes.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_datetime_values.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_constructors.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_arithmetic.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_missing.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_validate.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_rank.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_replace.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_apply.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_quantile.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_timezones.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_combine_concat.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_analytics.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_period.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_alter_axes.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_operators.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_subclass.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_io.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_internals.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_timeseries.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_api.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_sorting.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_asof.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  copying pandas/tests/series/test_repr.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
  creating build/lib.linux-x86_64-3.9/pandas/tests/util
  copying pandas/tests/util/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/util
  copying pandas/tests/util/test_util.py -> build/lib.linux-x86_64-3.9/pandas/tests/util
  copying pandas/tests/util/test_testing.py -> build/lib.linux-x86_64-3.9/pandas/tests/util
  copying pandas/tests/util/test_hashing.py -> build/lib.linux-x86_64-3.9/pandas/tests/util
  creating build/lib.linux-x86_64-3.9/pandas/tests/extension
  copying pandas/tests/extension/test_common.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension
  copying pandas/tests/extension/conftest.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension
  copying pandas/tests/extension/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension
  copying pandas/tests/extension/test_external_block.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension
  creating build/lib.linux-x86_64-3.9/pandas/tests/tslibs
  copying pandas/tests/tslibs/test_parsing.py -> build/lib.linux-x86_64-3.9/pandas/tests/tslibs
  copying pandas/tests/tslibs/test_ccalendar.py -> build/lib.linux-x86_64-3.9/pandas/tests/tslibs
  copying pandas/tests/tslibs/test_period_asfreq.py -> build/lib.linux-x86_64-3.9/pandas/tests/tslibs
  copying pandas/tests/tslibs/test_conversion.py -> build/lib.linux-x86_64-3.9/pandas/tests/tslibs
  copying pandas/tests/tslibs/test_liboffsets.py -> build/lib.linux-x86_64-3.9/pandas/tests/tslibs
  copying pandas/tests/tslibs/test_timezones.py -> build/lib.linux-x86_64-3.9/pandas/tests/tslibs
  copying pandas/tests/tslibs/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/tslibs
  copying pandas/tests/tslibs/test_libfrequencies.py -> build/lib.linux-x86_64-3.9/pandas/tests/tslibs
  copying pandas/tests/tslibs/test_array_to_datetime.py -> build/lib.linux-x86_64-3.9/pandas/tests/tslibs
  creating build/lib.linux-x86_64-3.9/pandas/tests/dtypes
  copying pandas/tests/dtypes/test_generic.py -> build/lib.linux-x86_64-3.9/pandas/tests/dtypes
  copying pandas/tests/dtypes/test_cast.py -> build/lib.linux-x86_64-3.9/pandas/tests/dtypes
  copying pandas/tests/dtypes/test_dtypes.py -> build/lib.linux-x86_64-3.9/pandas/tests/dtypes
  copying pandas/tests/dtypes/test_common.py -> build/lib.linux-x86_64-3.9/pandas/tests/dtypes
  copying pandas/tests/dtypes/test_missing.py -> build/lib.linux-x86_64-3.9/pandas/tests/dtypes
  copying pandas/tests/dtypes/test_concat.py -> build/lib.linux-x86_64-3.9/pandas/tests/dtypes
  copying pandas/tests/dtypes/test_inference.py -> build/lib.linux-x86_64-3.9/pandas/tests/dtypes
  copying pandas/tests/dtypes/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/dtypes
  creating build/lib.linux-x86_64-3.9/pandas/tests/tools
  copying pandas/tests/tools/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/tools
  copying pandas/tests/tools/test_numeric.py -> build/lib.linux-x86_64-3.9/pandas/tests/tools
  creating build/lib.linux-x86_64-3.9/pandas/tests/computation
  copying pandas/tests/computation/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/computation
  copying pandas/tests/computation/test_eval.py -> build/lib.linux-x86_64-3.9/pandas/tests/computation
  copying pandas/tests/computation/test_compat.py -> build/lib.linux-x86_64-3.9/pandas/tests/computation
  creating build/lib.linux-x86_64-3.9/pandas/tests/api
  copying pandas/tests/api/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/api
  copying pandas/tests/api/test_api.py -> build/lib.linux-x86_64-3.9/pandas/tests/api
  copying pandas/tests/api/test_types.py -> build/lib.linux-x86_64-3.9/pandas/tests/api
  creating build/lib.linux-x86_64-3.9/pandas/tests/sparse
  copying pandas/tests/sparse/test_groupby.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
  copying pandas/tests/sparse/test_pivot.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
  copying pandas/tests/sparse/test_arithmetics.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
  copying pandas/tests/sparse/test_libsparse.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
  copying pandas/tests/sparse/test_array.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
  copying pandas/tests/sparse/test_combine_concat.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
  copying pandas/tests/sparse/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
  copying pandas/tests/sparse/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
  copying pandas/tests/sparse/test_format.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
  copying pandas/tests/sparse/test_reshape.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
  copying pandas/tests/sparse/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
  creating build/lib.linux-x86_64-3.9/pandas/tests/io
  copying pandas/tests/io/test_packers.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
  copying pandas/tests/io/test_parquet.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
  copying pandas/tests/io/test_gbq.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
  copying pandas/tests/io/test_common.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
  copying pandas/tests/io/test_excel.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
  copying pandas/tests/io/test_pickle.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
  copying pandas/tests/io/test_clipboard.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
  copying pandas/tests/io/test_s3.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
  copying pandas/tests/io/conftest.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
  copying pandas/tests/io/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
  copying pandas/tests/io/test_sql.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
  copying pandas/tests/io/test_pytables.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
  copying pandas/tests/io/test_html.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
  copying pandas/tests/io/test_stata.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
  copying pandas/tests/io/generate_legacy_storage_files.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
  copying pandas/tests/io/test_feather.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
  creating build/lib.linux-x86_64-3.9/pandas/tests/scalar
  copying pandas/tests/scalar/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar
  copying pandas/tests/scalar/test_nat.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar
  creating build/lib.linux-x86_64-3.9/pandas/tests/indexes
  copying pandas/tests/indexes/test_range.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
  copying pandas/tests/indexes/test_frozen.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
  copying pandas/tests/indexes/test_multi.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
  copying pandas/tests/indexes/conftest.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
  copying pandas/tests/indexes/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
  copying pandas/tests/indexes/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
  copying pandas/tests/indexes/test_category.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
  copying pandas/tests/indexes/test_numeric.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
  copying pandas/tests/indexes/datetimelike.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
  copying pandas/tests/indexes/test_base.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
  creating build/lib.linux-x86_64-3.9/pandas/tests/plotting
  copying pandas/tests/plotting/test_groupby.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
  copying pandas/tests/plotting/test_hist_method.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
  copying pandas/tests/plotting/test_frame.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
  copying pandas/tests/plotting/test_deprecated.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
  copying pandas/tests/plotting/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
  copying pandas/tests/plotting/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
  copying pandas/tests/plotting/test_datetimelike.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
  copying pandas/tests/plotting/test_misc.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
  copying pandas/tests/plotting/test_series.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
  copying pandas/tests/plotting/test_converter.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
  copying pandas/tests/plotting/test_boxplot_method.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
  creating build/lib.linux-x86_64-3.9/pandas/tests/tseries
  copying pandas/tests/tseries/test_holiday.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries
  copying pandas/tests/tseries/conftest.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries
  copying pandas/tests/tseries/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries
  copying pandas/tests/tseries/test_frequencies.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries
  creating build/lib.linux-x86_64-3.9/pandas/tests/reshape
  copying pandas/tests/reshape/test_pivot.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape
  copying pandas/tests/reshape/test_tile.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape
  copying pandas/tests/reshape/test_concat.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape
  copying pandas/tests/reshape/test_union_categoricals.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape
  copying pandas/tests/reshape/test_melt.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape
  copying pandas/tests/reshape/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape
  copying pandas/tests/reshape/test_util.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape
  copying pandas/tests/reshape/test_reshape.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape
  creating build/lib.linux-x86_64-3.9/pandas/tests/generic
  copying pandas/tests/generic/test_generic.py -> build/lib.linux-x86_64-3.9/pandas/tests/generic
  copying pandas/tests/generic/test_label_or_level_utils.py -> build/lib.linux-x86_64-3.9/pandas/tests/generic
  copying pandas/tests/generic/test_panel.py -> build/lib.linux-x86_64-3.9/pandas/tests/generic
  copying pandas/tests/generic/test_frame.py -> build/lib.linux-x86_64-3.9/pandas/tests/generic
  copying pandas/tests/generic/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/generic
  copying pandas/tests/generic/test_series.py -> build/lib.linux-x86_64-3.9/pandas/tests/generic
  creating build/lib.linux-x86_64-3.9/pandas/tests/indexing
  copying pandas/tests/indexing/test_categorical.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
  copying pandas/tests/indexing/test_scalar.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
  copying pandas/tests/indexing/test_iloc.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
  copying pandas/tests/indexing/test_ix.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
  copying pandas/tests/indexing/test_panel.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
  copying pandas/tests/indexing/test_callable.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
  copying pandas/tests/indexing/test_multiindex.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
  copying pandas/tests/indexing/test_floats.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
  copying pandas/tests/indexing/test_coercion.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
  copying pandas/tests/indexing/test_datetime.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
  copying pandas/tests/indexing/test_indexing_slow.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
  copying pandas/tests/indexing/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
  copying pandas/tests/indexing/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
  copying pandas/tests/indexing/test_partial.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
  copying pandas/tests/indexing/test_timedelta.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
  copying pandas/tests/indexing/test_chaining_and_caching.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
  copying pandas/tests/indexing/test_loc.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
  copying pandas/tests/indexing/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
  creating build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_dtypes.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_mutate_columns.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_constructors.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_arithmetic.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_axis_select_reindex.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_missing.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_validate.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_rank.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_replace.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_apply.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_convert_to.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_quantile.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_to_csv.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_repr_info.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_sort_values_level_as_str.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_nonunique_indexes.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_timezones.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_combine_concat.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_analytics.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_period.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_alter_axes.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_query_eval.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_operators.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_subclass.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_join.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_timeseries.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_api.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_sorting.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_block_internals.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_asof.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_reshape.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  copying pandas/tests/frame/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
  creating build/lib.linux-x86_64-3.9/pandas/tests/groupby/aggregate
  copying pandas/tests/groupby/aggregate/test_cython.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby/aggregate
  copying pandas/tests/groupby/aggregate/test_other.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby/aggregate
  copying pandas/tests/groupby/aggregate/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby/aggregate
  copying pandas/tests/groupby/aggregate/test_aggregate.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby/aggregate
  creating build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
  copying pandas/tests/series/indexing/test_alter_index.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
  copying pandas/tests/series/indexing/test_iloc.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
  copying pandas/tests/series/indexing/test_callable.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
  copying pandas/tests/series/indexing/test_datetime.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
  copying pandas/tests/series/indexing/conftest.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
  copying pandas/tests/series/indexing/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
  copying pandas/tests/series/indexing/test_boolean.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
  copying pandas/tests/series/indexing/test_loc.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
  copying pandas/tests/series/indexing/test_numeric.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
  copying pandas/tests/series/indexing/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
  creating build/lib.linux-x86_64-3.9/pandas/tests/extension/category
  copying pandas/tests/extension/category/test_categorical.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/category
  copying pandas/tests/extension/category/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/category
  creating build/lib.linux-x86_64-3.9/pandas/tests/extension/decimal
  copying pandas/tests/extension/decimal/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/decimal
  copying pandas/tests/extension/decimal/array.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/decimal
  copying pandas/tests/extension/decimal/test_decimal.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/decimal
  creating build/lib.linux-x86_64-3.9/pandas/tests/extension/base
  copying pandas/tests/extension/base/constructors.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
  copying pandas/tests/extension/base/reshaping.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
  copying pandas/tests/extension/base/getitem.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
  copying pandas/tests/extension/base/methods.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
  copying pandas/tests/extension/base/interface.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
  copying pandas/tests/extension/base/base.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
  copying pandas/tests/extension/base/setitem.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
  copying pandas/tests/extension/base/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
  copying pandas/tests/extension/base/missing.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
  copying pandas/tests/extension/base/dtype.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
  copying pandas/tests/extension/base/groupby.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
  copying pandas/tests/extension/base/casting.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
  creating build/lib.linux-x86_64-3.9/pandas/tests/extension/json
  copying pandas/tests/extension/json/test_json.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/json
  copying pandas/tests/extension/json/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/json
  copying pandas/tests/extension/json/array.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/json
  creating build/lib.linux-x86_64-3.9/pandas/tests/sparse/series
  copying pandas/tests/sparse/series/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/series
  copying pandas/tests/sparse/series/test_series.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/series
  copying pandas/tests/sparse/series/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/series
  creating build/lib.linux-x86_64-3.9/pandas/tests/sparse/frame
  copying pandas/tests/sparse/frame/test_to_from_scipy.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/frame
  copying pandas/tests/sparse/frame/test_frame.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/frame
  copying pandas/tests/sparse/frame/test_apply.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/frame
  copying pandas/tests/sparse/frame/test_to_csv.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/frame
  copying pandas/tests/sparse/frame/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/frame
  copying pandas/tests/sparse/frame/test_analytics.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/frame
  copying pandas/tests/sparse/frame/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/frame
  creating build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
  copying pandas/tests/io/msgpack/test_extension.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
  copying pandas/tests/io/msgpack/test_sequnpack.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
  copying pandas/tests/io/msgpack/test_subtype.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
  copying pandas/tests/io/msgpack/test_limits.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
  copying pandas/tests/io/msgpack/test_obj.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
  copying pandas/tests/io/msgpack/test_pack.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
  copying pandas/tests/io/msgpack/test_except.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
  copying pandas/tests/io/msgpack/test_newspec.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
  copying pandas/tests/io/msgpack/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
  copying pandas/tests/io/msgpack/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
  copying pandas/tests/io/msgpack/test_case.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
  copying pandas/tests/io/msgpack/test_seq.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
  copying pandas/tests/io/msgpack/test_read_size.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
  copying pandas/tests/io/msgpack/test_unpack.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
  copying pandas/tests/io/msgpack/test_buffer.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
  copying pandas/tests/io/msgpack/test_format.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
  copying pandas/tests/io/msgpack/test_unpack_raw.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
  creating build/lib.linux-x86_64-3.9/pandas/tests/io/formats
  copying pandas/tests/io/formats/test_eng_formatting.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
  copying pandas/tests/io/formats/test_style.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
  copying pandas/tests/io/formats/test_css.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
  copying pandas/tests/io/formats/test_to_html.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
  copying pandas/tests/io/formats/test_to_csv.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
  copying pandas/tests/io/formats/test_printing.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
  copying pandas/tests/io/formats/test_to_latex.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
  copying pandas/tests/io/formats/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
  copying pandas/tests/io/formats/test_to_excel.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
  copying pandas/tests/io/formats/test_format.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
  creating build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/test_textreader.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/test_network.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/mangle_dupes.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/c_parser_only.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/test_read_fwf.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/header.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/converters.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/na_values.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/test_unsupported.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/multithread.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/compression.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/python_parser_only.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/quoting.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/index_col.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/test_parsers.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/dtypes.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/skiprows.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/parse_dates.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/comment.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/usecols.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  copying pandas/tests/io/parser/dialect.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
  creating build/lib.linux-x86_64-3.9/pandas/tests/io/json
  copying pandas/tests/io/json/test_pandas.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/json
  copying pandas/tests/io/json/test_normalize.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/json
  copying pandas/tests/io/json/test_compression.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/json
  copying pandas/tests/io/json/test_readlines.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/json
  copying pandas/tests/io/json/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/json
  copying pandas/tests/io/json/test_ujson.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/json
  copying pandas/tests/io/json/test_json_table_schema.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/json
  creating build/lib.linux-x86_64-3.9/pandas/tests/io/sas
  copying pandas/tests/io/sas/test_sas.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/sas
  copying pandas/tests/io/sas/test_xport.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/sas
  copying pandas/tests/io/sas/test_sas7bdat.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/sas
  copying pandas/tests/io/sas/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/sas
  creating build/lib.linux-x86_64-3.9/pandas/tests/scalar/timestamp
  copying pandas/tests/scalar/timestamp/test_unary_ops.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timestamp
  copying pandas/tests/scalar/timestamp/test_arithmetic.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timestamp
  copying pandas/tests/scalar/timestamp/test_comparisons.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timestamp
  copying pandas/tests/scalar/timestamp/test_timestamp.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timestamp
  copying pandas/tests/scalar/timestamp/test_timezones.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timestamp
  copying pandas/tests/scalar/timestamp/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timestamp
  copying pandas/tests/scalar/timestamp/test_rendering.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timestamp
  creating build/lib.linux-x86_64-3.9/pandas/tests/scalar/period
  copying pandas/tests/scalar/period/test_asfreq.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/period
  copying pandas/tests/scalar/period/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/period
  copying pandas/tests/scalar/period/test_period.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/period
  creating build/lib.linux-x86_64-3.9/pandas/tests/scalar/timedelta
  copying pandas/tests/scalar/timedelta/test_arithmetic.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timedelta
  copying pandas/tests/scalar/timedelta/test_formats.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timedelta
  copying pandas/tests/scalar/timedelta/test_construction.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timedelta
  copying pandas/tests/scalar/timedelta/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timedelta
  copying pandas/tests/scalar/timedelta/test_timedelta.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timedelta
  creating build/lib.linux-x86_64-3.9/pandas/tests/scalar/interval
  copying pandas/tests/scalar/interval/test_interval.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/interval
  copying pandas/tests/scalar/interval/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/interval
  creating build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
  copying pandas/tests/indexes/period/test_asfreq.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
  copying pandas/tests/indexes/period/test_arithmetic.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
  copying pandas/tests/indexes/period/test_ops.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
  copying pandas/tests/indexes/period/test_tools.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
  copying pandas/tests/indexes/period/test_setops.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
  copying pandas/tests/indexes/period/test_period_range.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
  copying pandas/tests/indexes/period/test_formats.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
  copying pandas/tests/indexes/period/test_construction.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
  copying pandas/tests/indexes/period/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
  copying pandas/tests/indexes/period/test_period.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
  copying pandas/tests/indexes/period/test_astype.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
  copying pandas/tests/indexes/period/test_scalar_compat.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
  copying pandas/tests/indexes/period/test_partial_slicing.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
  copying pandas/tests/indexes/period/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
  creating build/lib.linux-x86_64-3.9/pandas/tests/indexes/interval
  copying pandas/tests/indexes/interval/test_interval_new.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/interval
  copying pandas/tests/indexes/interval/test_interval.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/interval
  copying pandas/tests/indexes/interval/test_construction.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/interval
  copying pandas/tests/indexes/interval/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/interval
  copying pandas/tests/indexes/interval/test_interval_range.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/interval
  copying pandas/tests/indexes/interval/test_interval_tree.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/interval
  copying pandas/tests/indexes/interval/test_astype.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/interval
  creating build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
  copying pandas/tests/indexes/timedeltas/test_arithmetic.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
  copying pandas/tests/indexes/timedeltas/test_ops.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
  copying pandas/tests/indexes/timedeltas/test_tools.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
  copying pandas/tests/indexes/timedeltas/test_setops.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
  copying pandas/tests/indexes/timedeltas/test_formats.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
  copying pandas/tests/indexes/timedeltas/test_construction.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
  copying pandas/tests/indexes/timedeltas/test_timedelta_range.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
  copying pandas/tests/indexes/timedeltas/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
  copying pandas/tests/indexes/timedeltas/test_timedelta.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
  copying pandas/tests/indexes/timedeltas/test_astype.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
  copying pandas/tests/indexes/timedeltas/test_scalar_compat.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
  copying pandas/tests/indexes/timedeltas/test_partial_slicing.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
  copying pandas/tests/indexes/timedeltas/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
  creating build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
  copying pandas/tests/indexes/datetimes/test_arithmetic.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
  copying pandas/tests/indexes/datetimes/test_missing.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
  copying pandas/tests/indexes/datetimes/test_ops.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
  copying pandas/tests/indexes/datetimes/test_tools.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
  copying pandas/tests/indexes/datetimes/test_setops.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
  copying pandas/tests/indexes/datetimes/test_timezones.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
  copying pandas/tests/indexes/datetimes/test_formats.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
  copying pandas/tests/indexes/datetimes/test_date_range.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
  copying pandas/tests/indexes/datetimes/test_datetime.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
  copying pandas/tests/indexes/datetimes/test_construction.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
  copying pandas/tests/indexes/datetimes/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
  copying pandas/tests/indexes/datetimes/test_datetimelike.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
  copying pandas/tests/indexes/datetimes/test_misc.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
  copying pandas/tests/indexes/datetimes/test_astype.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
  copying pandas/tests/indexes/datetimes/test_scalar_compat.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
  copying pandas/tests/indexes/datetimes/test_partial_slicing.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
  copying pandas/tests/indexes/datetimes/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
  creating build/lib.linux-x86_64-3.9/pandas/tests/tseries/offsets
  copying pandas/tests/tseries/offsets/test_offsets.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries/offsets
  copying pandas/tests/tseries/offsets/test_fiscal.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries/offsets
  copying pandas/tests/tseries/offsets/conftest.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries/offsets
  copying pandas/tests/tseries/offsets/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries/offsets
  copying pandas/tests/tseries/offsets/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries/offsets
  copying pandas/tests/tseries/offsets/test_ticks.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries/offsets
  copying pandas/tests/tseries/offsets/test_yqm_offsets.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries/offsets
  creating build/lib.linux-x86_64-3.9/pandas/tests/reshape/merge
  copying pandas/tests/reshape/merge/test_merge.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape/merge
  copying pandas/tests/reshape/merge/test_merge_ordered.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape/merge
  copying pandas/tests/reshape/merge/test_merge_index_as_string.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape/merge
  copying pandas/tests/reshape/merge/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape/merge
  copying pandas/tests/reshape/merge/test_merge_asof.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape/merge
  copying pandas/tests/reshape/merge/test_join.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape/merge
  creating build/lib.linux-x86_64-3.9/pandas/tests/indexing/interval
  copying pandas/tests/indexing/interval/test_interval_new.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing/interval
  copying pandas/tests/indexing/interval/test_interval.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing/interval
  copying pandas/tests/indexing/interval/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing/interval
  creating build/lib.linux-x86_64-3.9/pandas/core/groupby
  copying pandas/core/groupby/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core/groupby
  copying pandas/core/groupby/groupby.py -> build/lib.linux-x86_64-3.9/pandas/core/groupby
  creating build/lib.linux-x86_64-3.9/pandas/core/util
  copying pandas/core/util/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core/util
  copying pandas/core/util/hashing.py -> build/lib.linux-x86_64-3.9/pandas/core/util
  creating build/lib.linux-x86_64-3.9/pandas/core/dtypes
  copying pandas/core/dtypes/inference.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
  copying pandas/core/dtypes/generic.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
  copying pandas/core/dtypes/base.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
  copying pandas/core/dtypes/concat.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
  copying pandas/core/dtypes/common.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
  copying pandas/core/dtypes/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
  copying pandas/core/dtypes/cast.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
  copying pandas/core/dtypes/missing.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
  copying pandas/core/dtypes/dtypes.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
  copying pandas/core/dtypes/api.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
  creating build/lib.linux-x86_64-3.9/pandas/core/tools
  copying pandas/core/tools/numeric.py -> build/lib.linux-x86_64-3.9/pandas/core/tools
  copying pandas/core/tools/timedeltas.py -> build/lib.linux-x86_64-3.9/pandas/core/tools
  copying pandas/core/tools/datetimes.py -> build/lib.linux-x86_64-3.9/pandas/core/tools
  copying pandas/core/tools/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core/tools
  creating build/lib.linux-x86_64-3.9/pandas/core/computation
  copying pandas/core/computation/expr.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
  copying pandas/core/computation/align.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
  copying pandas/core/computation/check.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
  copying pandas/core/computation/scope.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
  copying pandas/core/computation/pytables.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
  copying pandas/core/computation/common.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
  copying pandas/core/computation/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
  copying pandas/core/computation/ops.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
  copying pandas/core/computation/engines.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
  copying pandas/core/computation/api.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
  copying pandas/core/computation/expressions.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
  copying pandas/core/computation/eval.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
  creating build/lib.linux-x86_64-3.9/pandas/core/sparse
  copying pandas/core/sparse/scipy_sparse.py -> build/lib.linux-x86_64-3.9/pandas/core/sparse
  copying pandas/core/sparse/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core/sparse
  copying pandas/core/sparse/series.py -> build/lib.linux-x86_64-3.9/pandas/core/sparse
  copying pandas/core/sparse/array.py -> build/lib.linux-x86_64-3.9/pandas/core/sparse
  copying pandas/core/sparse/api.py -> build/lib.linux-x86_64-3.9/pandas/core/sparse
  copying pandas/core/sparse/frame.py -> build/lib.linux-x86_64-3.9/pandas/core/sparse
  creating build/lib.linux-x86_64-3.9/pandas/core/arrays
  copying pandas/core/arrays/base.py -> build/lib.linux-x86_64-3.9/pandas/core/arrays
  copying pandas/core/arrays/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core/arrays
  copying pandas/core/arrays/categorical.py -> build/lib.linux-x86_64-3.9/pandas/core/arrays
  creating build/lib.linux-x86_64-3.9/pandas/core/indexes
  copying pandas/core/indexes/accessors.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
  copying pandas/core/indexes/interval.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
  copying pandas/core/indexes/numeric.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
  copying pandas/core/indexes/frozen.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
  copying pandas/core/indexes/timedeltas.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
  copying pandas/core/indexes/multi.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
  copying pandas/core/indexes/base.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
  copying pandas/core/indexes/period.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
  copying pandas/core/indexes/datetimes.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
  copying pandas/core/indexes/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
  copying pandas/core/indexes/category.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
  copying pandas/core/indexes/range.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
  copying pandas/core/indexes/api.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
  copying pandas/core/indexes/datetimelike.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
  creating build/lib.linux-x86_64-3.9/pandas/core/reshape
  copying pandas/core/reshape/pivot.py -> build/lib.linux-x86_64-3.9/pandas/core/reshape
  copying pandas/core/reshape/reshape.py -> build/lib.linux-x86_64-3.9/pandas/core/reshape
  copying pandas/core/reshape/util.py -> build/lib.linux-x86_64-3.9/pandas/core/reshape
  copying pandas/core/reshape/concat.py -> build/lib.linux-x86_64-3.9/pandas/core/reshape
  copying pandas/core/reshape/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core/reshape
  copying pandas/core/reshape/tile.py -> build/lib.linux-x86_64-3.9/pandas/core/reshape
  copying pandas/core/reshape/melt.py -> build/lib.linux-x86_64-3.9/pandas/core/reshape
  copying pandas/core/reshape/api.py -> build/lib.linux-x86_64-3.9/pandas/core/reshape
  copying pandas/core/reshape/merge.py -> build/lib.linux-x86_64-3.9/pandas/core/reshape
  creating build/lib.linux-x86_64-3.9/pandas/io/formats/templates
  copying pandas/io/formats/templates/html.tpl -> build/lib.linux-x86_64-3.9/pandas/io/formats/templates
  UPDATING build/lib.linux-x86_64-3.9/pandas/_version.py
  set build/lib.linux-x86_64-3.9/pandas/_version.py to '0.23.4'
  running build_ext
  building 'pandas._libs.algos' extension
  creating build/temp.linux-x86_64-3.9
  creating build/temp.linux-x86_64-3.9/pandas
  creating build/temp.linux-x86_64-3.9/pandas/_libs
  gcc -pthread -B /home/lailab/miniconda3/envs/scrna/compiler_compat -Wl,--sysroot=/ -Wno-unused-result -Wsign-compare -DNDEBUG -fwrapv -O2 -Wall -fPIC -O2 -isystem /home/lailab/miniconda3/envs/scrna/include -fPIC -O2 -isystem /home/lailab/miniconda3/envs/scrna/include -fPIC -Ipandas/_libs/src/klib -Ipandas/_libs/src -I/tmp/pip-install-y5acgmq1/pandas_96412d7fcf2347fe8e58174ad497cb89/.eggs/numpy-1.20.2-py3.9-linux-x86_64.egg/numpy/core/include -I/home/lailab/miniconda3/envs/scrna/include/python3.9 -c pandas/_libs/algos.c -o build/temp.linux-x86_64-3.9/pandas/_libs/algos.o -Wno-unused-function
  In file included from /tmp/pip-install-y5acgmq1/pandas_96412d7fcf2347fe8e58174ad497cb89/.eggs/numpy-1.20.2-py3.9-linux-x86_64.egg/numpy/core/include/numpy/ndarraytypes.h:1944:0,
                   from /tmp/pip-install-y5acgmq1/pandas_96412d7fcf2347fe8e58174ad497cb89/.eggs/numpy-1.20.2-py3.9-linux-x86_64.egg/numpy/core/include/numpy/ndarrayobject.h:12,
                   from /tmp/pip-install-y5acgmq1/pandas_96412d7fcf2347fe8e58174ad497cb89/.eggs/numpy-1.20.2-py3.9-linux-x86_64.egg/numpy/core/include/numpy/arrayobject.h:4,
                   from pandas/_libs/algos.c:567:
  /tmp/pip-install-y5acgmq1/pandas_96412d7fcf2347fe8e58174ad497cb89/.eggs/numpy-1.20.2-py3.9-linux-x86_64.egg/numpy/core/include/numpy/npy_1_7_deprecated_api.h:17:2: warning: #warning "Using deprecated NumPy API, disable it with " "#define NPY_NO_DEPRECATED_API NPY_1_7_API_VERSION" [-Wcpp]
   #warning "Using deprecated NumPy API, disable it with " \
    ^
  pandas/_libs/algos.c: In function ‘__Pyx_modinit_type_init_code’:
  pandas/_libs/algos.c:136915:25: error: ‘PyTypeObject {aka struct _typeobject}’ has no member named ‘tp_print’
     __pyx_type___pyx_array.tp_print = 0;
                           ^
  pandas/_libs/algos.c:136920:31: error: ‘PyTypeObject {aka struct _typeobject}’ has no member named ‘tp_print’
     __pyx_type___pyx_MemviewEnum.tp_print = 0;
                                 ^
  pandas/_libs/algos.c:136935:30: error: ‘PyTypeObject {aka struct _typeobject}’ has no member named ‘tp_print’
     __pyx_type___pyx_memoryview.tp_print = 0;
                                ^
  pandas/_libs/algos.c:136948:35: error: ‘PyTypeObject {aka struct _typeobject}’ has no member named ‘tp_print’
     __pyx_type___pyx_memoryviewslice.tp_print = 0;
                                     ^
  pandas/_libs/algos.c: In function ‘__Pyx_ParseOptionalKeywords’:
  pandas/_libs/algos.c:142077:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
                       (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 :
                       ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from pandas/_libs/algos.c:4:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
   static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
                            ^
  pandas/_libs/algos.c:142077:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations]
                       (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 :
                       ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from pandas/_libs/algos.c:4:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here
   Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode(
                                               ^
  pandas/_libs/algos.c:142077:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
                       (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 :
                       ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from pandas/_libs/algos.c:4:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
   static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
                            ^
  pandas/_libs/algos.c:142077:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
                       (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 :
                       ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from pandas/_libs/algos.c:4:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
   static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
                            ^
  pandas/_libs/algos.c:142077:21: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations]
                       (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 :
                       ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from pandas/_libs/algos.c:4:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here
   Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode(
                                               ^
  pandas/_libs/algos.c:142077:21: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
                       (PyUnicode_GET_SIZE(**name) != PyUnicode_GET_SIZE(key)) ? 1 :
                       ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from pandas/_libs/algos.c:4:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
   static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
                            ^
  pandas/_libs/algos.c:142093:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
                           (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 :
                           ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from pandas/_libs/algos.c:4:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
   static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
                            ^
  pandas/_libs/algos.c:142093:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations]
                           (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 :
                           ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from pandas/_libs/algos.c:4:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here
   Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode(
                                               ^
  pandas/_libs/algos.c:142093:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
                           (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 :
                           ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from pandas/_libs/algos.c:4:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
   static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
                            ^
  pandas/_libs/algos.c:142093:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
                           (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 :
                           ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from pandas/_libs/algos.c:4:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
   static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
                            ^
  pandas/_libs/algos.c:142093:25: warning: ‘PyUnicode_AsUnicode’ is deprecated [-Wdeprecated-declarations]
                           (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 :
                           ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from pandas/_libs/algos.c:4:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:580:45: note: declared here
   Py_DEPRECATED(3.3) PyAPI_FUNC(Py_UNICODE *) PyUnicode_AsUnicode(
                                               ^
  pandas/_libs/algos.c:142093:25: warning: ‘_PyUnicode_get_wstr_length’ is deprecated [-Wdeprecated-declarations]
                           (PyUnicode_GET_SIZE(**argname) != PyUnicode_GET_SIZE(key)) ? 1 :
                           ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from pandas/_libs/algos.c:4:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:446:26: note: declared here
   static inline Py_ssize_t _PyUnicode_get_wstr_length(PyObject *op) {
                            ^
  pandas/_libs/algos.c: In function ‘__Pyx_decode_c_string’:
  pandas/_libs/algos.c:144275:9: warning: ‘PyUnicode_FromUnicode’ is deprecated [-Wdeprecated-declarations]
           return PyUnicode_FromUnicode(NULL, 0);
           ^
  In file included from /home/lailab/miniconda3/envs/scrna/include/python3.9/unicodeobject.h:1026:0,
                   from /home/lailab/miniconda3/envs/scrna/include/python3.9/Python.h:97,
                   from pandas/_libs/algos.c:4:
  /home/lailab/miniconda3/envs/scrna/include/python3.9/cpython/unicodeobject.h:551:42: note: declared here
   Py_DEPRECATED(3.3) PyAPI_FUNC(PyObject*) PyUnicode_FromUnicode(
                                            ^
  error: command '/usr/bin/gcc' failed with exit code 1
  ----------------------------------------
  ERROR: Failed building wheel for pandas
  Running setup.py clean for pandas
  Building wheel for editdistance (setup.py) ... done
  Created wheel for editdistance: filename=editdistance-0.5.3-cp39-cp39-linux_x86_64.whl size=24005 sha256=f238860c0194ad96cc694617ddcd3fe7c218eee6e19a56814dc9abde1d4f39e3
  Stored in directory: /home/lailab/.cache/pip/wheels/c8/f5/25/aad69e51749e9ea26c7ef5c7c9dd6180ebeede1bb2fcbbd204
  Building wheel for pysam (setup.py) ... done
  Created wheel for pysam: filename=pysam-0.16.0.1-cp39-cp39-linux_x86_64.whl size=2898912 sha256=a4beb955c5ae96d34d27b08523a29a91fc706f88b52caadead61db33f738511d
  Stored in directory: /home/lailab/.cache/pip/wheels/31/79/6c/c3b35e6791b08201e52b6479e0b6daf76cc0a34937373feef2
  Building wheel for sklearn (setup.py) ... done
  Created wheel for sklearn: filename=sklearn-0.0-py2.py3-none-any.whl size=1316 sha256=543f8e837badec3d6d60b7122c0ace1f50a39368728aabd4ff4299074cbb64c3
  Stored in directory: /home/lailab/.cache/pip/wheels/b5/39/b2/13b2d6aa5d88f4ef3d456f394d2bc36d2d1132ad8400657567
Successfully built editdistance pysam sklearn
Failed to build cutadapt pandas
Installing collected packages: six, numpy, threadpoolctl, scipy, pytz, python-dateutil, joblib, isal, xopen, scikit-learn, pysam, pyparsing, pillow, pandas, MarkupSafe, kiwisolver, cycler, sklearn, mutract, matplotlib, jinja2, editdistance, cutadapt, celescope
    Running setup.py install for pandas ... error
    ERROR: Command errored out with exit status 1:
     command: /home/lailab/miniconda3/envs/scrna/bin/python3.9 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-install-y5acgmq1/pandas_96412d7fcf2347fe8e58174ad497cb89/setup.py'"'"'; __file__='"'"'/tmp/pip-install-y5acgmq1/pandas_96412d7fcf2347fe8e58174ad497cb89/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' install --record /tmp/pip-record-upxjfamf/install-record.txt --single-version-externally-managed --compile --install-headers /home/lailab/miniconda3/envs/scrna/include/python3.9/pandas
         cwd: /tmp/pip-install-y5acgmq1/pandas_96412d7fcf2347fe8e58174ad497cb89/
    Complete output (733 lines):
    running install
    running build
    running build_py
    creating build
    creating build/lib.linux-x86_64-3.9
    creating build/lib.linux-x86_64-3.9/pandas
    copying pandas/_version.py -> build/lib.linux-x86_64-3.9/pandas
    copying pandas/parser.py -> build/lib.linux-x86_64-3.9/pandas
    copying pandas/conftest.py -> build/lib.linux-x86_64-3.9/pandas
    copying pandas/testing.py -> build/lib.linux-x86_64-3.9/pandas
    copying pandas/__init__.py -> build/lib.linux-x86_64-3.9/pandas
    copying pandas/lib.py -> build/lib.linux-x86_64-3.9/pandas
    copying pandas/tslib.py -> build/lib.linux-x86_64-3.9/pandas
    copying pandas/json.py -> build/lib.linux-x86_64-3.9/pandas
    creating build/lib.linux-x86_64-3.9/pandas/_libs
    copying pandas/_libs/__init__.py -> build/lib.linux-x86_64-3.9/pandas/_libs
    creating build/lib.linux-x86_64-3.9/pandas/types
    copying pandas/types/concat.py -> build/lib.linux-x86_64-3.9/pandas/types
    copying pandas/types/common.py -> build/lib.linux-x86_64-3.9/pandas/types
    copying pandas/types/__init__.py -> build/lib.linux-x86_64-3.9/pandas/types
    creating build/lib.linux-x86_64-3.9/pandas/util
    copying pandas/util/decorators.py -> build/lib.linux-x86_64-3.9/pandas/util
    copying pandas/util/_doctools.py -> build/lib.linux-x86_64-3.9/pandas/util
    copying pandas/util/testing.py -> build/lib.linux-x86_64-3.9/pandas/util
    copying pandas/util/__init__.py -> build/lib.linux-x86_64-3.9/pandas/util
    copying pandas/util/_validators.py -> build/lib.linux-x86_64-3.9/pandas/util
    copying pandas/util/_tester.py -> build/lib.linux-x86_64-3.9/pandas/util
    copying pandas/util/_print_versions.py -> build/lib.linux-x86_64-3.9/pandas/util
    copying pandas/util/_test_decorators.py -> build/lib.linux-x86_64-3.9/pandas/util
    copying pandas/util/_decorators.py -> build/lib.linux-x86_64-3.9/pandas/util
    copying pandas/util/_depr_module.py -> build/lib.linux-x86_64-3.9/pandas/util
    creating build/lib.linux-x86_64-3.9/pandas/errors
    copying pandas/errors/__init__.py -> build/lib.linux-x86_64-3.9/pandas/errors
    creating build/lib.linux-x86_64-3.9/pandas/tools
    copying pandas/tools/plotting.py -> build/lib.linux-x86_64-3.9/pandas/tools
    copying pandas/tools/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tools
    copying pandas/tools/merge.py -> build/lib.linux-x86_64-3.9/pandas/tools
    creating build/lib.linux-x86_64-3.9/pandas/computation
    copying pandas/computation/__init__.py -> build/lib.linux-x86_64-3.9/pandas/computation
    copying pandas/computation/expressions.py -> build/lib.linux-x86_64-3.9/pandas/computation
    creating build/lib.linux-x86_64-3.9/pandas/formats
    copying pandas/formats/style.py -> build/lib.linux-x86_64-3.9/pandas/formats
    copying pandas/formats/__init__.py -> build/lib.linux-x86_64-3.9/pandas/formats
    creating build/lib.linux-x86_64-3.9/pandas/api
    copying pandas/api/__init__.py -> build/lib.linux-x86_64-3.9/pandas/api
    creating build/lib.linux-x86_64-3.9/pandas/io
    copying pandas/io/gbq.py -> build/lib.linux-x86_64-3.9/pandas/io
    copying pandas/io/parsers.py -> build/lib.linux-x86_64-3.9/pandas/io
    copying pandas/io/excel.py -> build/lib.linux-x86_64-3.9/pandas/io
    copying pandas/io/feather_format.py -> build/lib.linux-x86_64-3.9/pandas/io
    copying pandas/io/clipboards.py -> build/lib.linux-x86_64-3.9/pandas/io
    copying pandas/io/pytables.py -> build/lib.linux-x86_64-3.9/pandas/io
    copying pandas/io/pickle.py -> build/lib.linux-x86_64-3.9/pandas/io
    copying pandas/io/s3.py -> build/lib.linux-x86_64-3.9/pandas/io
    copying pandas/io/common.py -> build/lib.linux-x86_64-3.9/pandas/io
    copying pandas/io/__init__.py -> build/lib.linux-x86_64-3.9/pandas/io
    copying pandas/io/date_converters.py -> build/lib.linux-x86_64-3.9/pandas/io
    copying pandas/io/sql.py -> build/lib.linux-x86_64-3.9/pandas/io
    copying pandas/io/html.py -> build/lib.linux-x86_64-3.9/pandas/io
    copying pandas/io/api.py -> build/lib.linux-x86_64-3.9/pandas/io
    copying pandas/io/stata.py -> build/lib.linux-x86_64-3.9/pandas/io
    copying pandas/io/parquet.py -> build/lib.linux-x86_64-3.9/pandas/io
    copying pandas/io/packers.py -> build/lib.linux-x86_64-3.9/pandas/io
    creating build/lib.linux-x86_64-3.9/pandas/compat
    copying pandas/compat/pickle_compat.py -> build/lib.linux-x86_64-3.9/pandas/compat
    copying pandas/compat/chainmap.py -> build/lib.linux-x86_64-3.9/pandas/compat
    copying pandas/compat/__init__.py -> build/lib.linux-x86_64-3.9/pandas/compat
    copying pandas/compat/chainmap_impl.py -> build/lib.linux-x86_64-3.9/pandas/compat
    creating build/lib.linux-x86_64-3.9/pandas/plotting
    copying pandas/plotting/_compat.py -> build/lib.linux-x86_64-3.9/pandas/plotting
    copying pandas/plotting/_style.py -> build/lib.linux-x86_64-3.9/pandas/plotting
    copying pandas/plotting/_tools.py -> build/lib.linux-x86_64-3.9/pandas/plotting
    copying pandas/plotting/_core.py -> build/lib.linux-x86_64-3.9/pandas/plotting
    copying pandas/plotting/_timeseries.py -> build/lib.linux-x86_64-3.9/pandas/plotting
    copying pandas/plotting/__init__.py -> build/lib.linux-x86_64-3.9/pandas/plotting
    copying pandas/plotting/_misc.py -> build/lib.linux-x86_64-3.9/pandas/plotting
    copying pandas/plotting/_converter.py -> build/lib.linux-x86_64-3.9/pandas/plotting
    creating build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/test_downstream.py -> build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/test_common.py -> build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/test_algos.py -> build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/test_window.py -> build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/test_panel.py -> build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/test_take.py -> build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/test_nanops.py -> build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/test_errors.py -> build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/test_expressions.py -> build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/test_resample.py -> build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/test_register_accessor.py -> build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/test_strings.py -> build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/test_multilevel.py -> build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/test_join.py -> build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/test_sorting.py -> build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/test_lib.py -> build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/test_config.py -> build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/test_compat.py -> build/lib.linux-x86_64-3.9/pandas/tests
    copying pandas/tests/test_base.py -> build/lib.linux-x86_64-3.9/pandas/tests
    creating build/lib.linux-x86_64-3.9/pandas/tseries
    copying pandas/tseries/converter.py -> build/lib.linux-x86_64-3.9/pandas/tseries
    copying pandas/tseries/plotting.py -> build/lib.linux-x86_64-3.9/pandas/tseries
    copying pandas/tseries/holiday.py -> build/lib.linux-x86_64-3.9/pandas/tseries
    copying pandas/tseries/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tseries
    copying pandas/tseries/offsets.py -> build/lib.linux-x86_64-3.9/pandas/tseries
    copying pandas/tseries/frequencies.py -> build/lib.linux-x86_64-3.9/pandas/tseries
    copying pandas/tseries/api.py -> build/lib.linux-x86_64-3.9/pandas/tseries
    creating build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/config_init.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/nanops.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/accessor.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/datetools.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/algorithms.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/generic.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/window.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/sorting.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/base.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/indexing.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/panel.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/common.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/series.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/ops.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/missing.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/strings.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/internals.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/api.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/frame.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/config.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/apply.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/categorical.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/resample.py -> build/lib.linux-x86_64-3.9/pandas/core
    copying pandas/core/index.py -> build/lib.linux-x86_64-3.9/pandas/core
    creating build/lib.linux-x86_64-3.9/pandas/_libs/tslibs
    copying pandas/_libs/tslibs/__init__.py -> build/lib.linux-x86_64-3.9/pandas/_libs/tslibs
    creating build/lib.linux-x86_64-3.9/pandas/api/types
    copying pandas/api/types/__init__.py -> build/lib.linux-x86_64-3.9/pandas/api/types
    creating build/lib.linux-x86_64-3.9/pandas/api/extensions
    copying pandas/api/extensions/__init__.py -> build/lib.linux-x86_64-3.9/pandas/api/extensions
    creating build/lib.linux-x86_64-3.9/pandas/io/clipboard
    copying pandas/io/clipboard/exceptions.py -> build/lib.linux-x86_64-3.9/pandas/io/clipboard
    copying pandas/io/clipboard/windows.py -> build/lib.linux-x86_64-3.9/pandas/io/clipboard
    copying pandas/io/clipboard/clipboards.py -> build/lib.linux-x86_64-3.9/pandas/io/clipboard
    copying pandas/io/clipboard/__init__.py -> build/lib.linux-x86_64-3.9/pandas/io/clipboard
    creating build/lib.linux-x86_64-3.9/pandas/io/msgpack
    copying pandas/io/msgpack/exceptions.py -> build/lib.linux-x86_64-3.9/pandas/io/msgpack
    copying pandas/io/msgpack/_version.py -> build/lib.linux-x86_64-3.9/pandas/io/msgpack
    copying pandas/io/msgpack/__init__.py -> build/lib.linux-x86_64-3.9/pandas/io/msgpack
    creating build/lib.linux-x86_64-3.9/pandas/io/formats
    copying pandas/io/formats/format.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
    copying pandas/io/formats/console.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
    copying pandas/io/formats/latex.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
    copying pandas/io/formats/csvs.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
    copying pandas/io/formats/excel.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
    copying pandas/io/formats/style.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
    copying pandas/io/formats/printing.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
    copying pandas/io/formats/css.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
    copying pandas/io/formats/__init__.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
    copying pandas/io/formats/html.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
    copying pandas/io/formats/terminal.py -> build/lib.linux-x86_64-3.9/pandas/io/formats
    creating build/lib.linux-x86_64-3.9/pandas/io/json
    copying pandas/io/json/normalize.py -> build/lib.linux-x86_64-3.9/pandas/io/json
    copying pandas/io/json/__init__.py -> build/lib.linux-x86_64-3.9/pandas/io/json
    copying pandas/io/json/json.py -> build/lib.linux-x86_64-3.9/pandas/io/json
    copying pandas/io/json/table_schema.py -> build/lib.linux-x86_64-3.9/pandas/io/json
    creating build/lib.linux-x86_64-3.9/pandas/io/sas
    copying pandas/io/sas/sas_xport.py -> build/lib.linux-x86_64-3.9/pandas/io/sas
    copying pandas/io/sas/sas_constants.py -> build/lib.linux-x86_64-3.9/pandas/io/sas
    copying pandas/io/sas/__init__.py -> build/lib.linux-x86_64-3.9/pandas/io/sas
    copying pandas/io/sas/sasreader.py -> build/lib.linux-x86_64-3.9/pandas/io/sas
    copying pandas/io/sas/sas7bdat.py -> build/lib.linux-x86_64-3.9/pandas/io/sas
    creating build/lib.linux-x86_64-3.9/pandas/compat/numpy
    copying pandas/compat/numpy/function.py -> build/lib.linux-x86_64-3.9/pandas/compat/numpy
    copying pandas/compat/numpy/__init__.py -> build/lib.linux-x86_64-3.9/pandas/compat/numpy
    creating build/lib.linux-x86_64-3.9/pandas/tests/internals
    copying pandas/tests/internals/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/internals
    copying pandas/tests/internals/test_internals.py -> build/lib.linux-x86_64-3.9/pandas/tests/internals
    creating build/lib.linux-x86_64-3.9/pandas/tests/groupby
    copying pandas/tests/groupby/test_categorical.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
    copying pandas/tests/groupby/test_groupby.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
    copying pandas/tests/groupby/test_whitelist.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
    copying pandas/tests/groupby/test_nth.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
    copying pandas/tests/groupby/test_index_as_string.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
    copying pandas/tests/groupby/test_filters.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
    copying pandas/tests/groupby/test_function.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
    copying pandas/tests/groupby/test_value_counts.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
    copying pandas/tests/groupby/test_rank.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
    copying pandas/tests/groupby/test_apply.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
    copying pandas/tests/groupby/test_counting.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
    copying pandas/tests/groupby/test_grouping.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
    copying pandas/tests/groupby/test_bin_groupby.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
    copying pandas/tests/groupby/conftest.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
    copying pandas/tests/groupby/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
    copying pandas/tests/groupby/test_transform.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
    copying pandas/tests/groupby/test_timegrouper.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby
    creating build/lib.linux-x86_64-3.9/pandas/tests/categorical
    copying pandas/tests/categorical/test_dtypes.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
    copying pandas/tests/categorical/test_constructors.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
    copying pandas/tests/categorical/test_missing.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
    copying pandas/tests/categorical/test_algos.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
    copying pandas/tests/categorical/test_warnings.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
    copying pandas/tests/categorical/conftest.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
    copying pandas/tests/categorical/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
    copying pandas/tests/categorical/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
    copying pandas/tests/categorical/test_analytics.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
    copying pandas/tests/categorical/test_operators.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
    copying pandas/tests/categorical/test_subclass.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
    copying pandas/tests/categorical/test_api.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
    copying pandas/tests/categorical/test_sorting.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
    copying pandas/tests/categorical/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
    copying pandas/tests/categorical/test_repr.py -> build/lib.linux-x86_64-3.9/pandas/tests/categorical
    creating build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_dtypes.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_datetime_values.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_constructors.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_arithmetic.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_missing.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_validate.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_rank.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_replace.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_apply.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_quantile.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_timezones.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_combine_concat.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_analytics.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_period.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_alter_axes.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_operators.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_subclass.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_io.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_internals.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_timeseries.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_api.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_sorting.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_asof.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    copying pandas/tests/series/test_repr.py -> build/lib.linux-x86_64-3.9/pandas/tests/series
    creating build/lib.linux-x86_64-3.9/pandas/tests/util
    copying pandas/tests/util/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/util
    copying pandas/tests/util/test_util.py -> build/lib.linux-x86_64-3.9/pandas/tests/util
    copying pandas/tests/util/test_testing.py -> build/lib.linux-x86_64-3.9/pandas/tests/util
    copying pandas/tests/util/test_hashing.py -> build/lib.linux-x86_64-3.9/pandas/tests/util
    creating build/lib.linux-x86_64-3.9/pandas/tests/extension
    copying pandas/tests/extension/test_common.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension
    copying pandas/tests/extension/conftest.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension
    copying pandas/tests/extension/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension
    copying pandas/tests/extension/test_external_block.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension
    creating build/lib.linux-x86_64-3.9/pandas/tests/tslibs
    copying pandas/tests/tslibs/test_parsing.py -> build/lib.linux-x86_64-3.9/pandas/tests/tslibs
    copying pandas/tests/tslibs/test_ccalendar.py -> build/lib.linux-x86_64-3.9/pandas/tests/tslibs
    copying pandas/tests/tslibs/test_period_asfreq.py -> build/lib.linux-x86_64-3.9/pandas/tests/tslibs
    copying pandas/tests/tslibs/test_conversion.py -> build/lib.linux-x86_64-3.9/pandas/tests/tslibs
    copying pandas/tests/tslibs/test_liboffsets.py -> build/lib.linux-x86_64-3.9/pandas/tests/tslibs
    copying pandas/tests/tslibs/test_timezones.py -> build/lib.linux-x86_64-3.9/pandas/tests/tslibs
    copying pandas/tests/tslibs/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/tslibs
    copying pandas/tests/tslibs/test_libfrequencies.py -> build/lib.linux-x86_64-3.9/pandas/tests/tslibs
    copying pandas/tests/tslibs/test_array_to_datetime.py -> build/lib.linux-x86_64-3.9/pandas/tests/tslibs
    creating build/lib.linux-x86_64-3.9/pandas/tests/dtypes
    copying pandas/tests/dtypes/test_generic.py -> build/lib.linux-x86_64-3.9/pandas/tests/dtypes
    copying pandas/tests/dtypes/test_cast.py -> build/lib.linux-x86_64-3.9/pandas/tests/dtypes
    copying pandas/tests/dtypes/test_dtypes.py -> build/lib.linux-x86_64-3.9/pandas/tests/dtypes
    copying pandas/tests/dtypes/test_common.py -> build/lib.linux-x86_64-3.9/pandas/tests/dtypes
    copying pandas/tests/dtypes/test_missing.py -> build/lib.linux-x86_64-3.9/pandas/tests/dtypes
    copying pandas/tests/dtypes/test_concat.py -> build/lib.linux-x86_64-3.9/pandas/tests/dtypes
    copying pandas/tests/dtypes/test_inference.py -> build/lib.linux-x86_64-3.9/pandas/tests/dtypes
    copying pandas/tests/dtypes/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/dtypes
    creating build/lib.linux-x86_64-3.9/pandas/tests/tools
    copying pandas/tests/tools/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/tools
    copying pandas/tests/tools/test_numeric.py -> build/lib.linux-x86_64-3.9/pandas/tests/tools
    creating build/lib.linux-x86_64-3.9/pandas/tests/computation
    copying pandas/tests/computation/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/computation
    copying pandas/tests/computation/test_eval.py -> build/lib.linux-x86_64-3.9/pandas/tests/computation
    copying pandas/tests/computation/test_compat.py -> build/lib.linux-x86_64-3.9/pandas/tests/computation
    creating build/lib.linux-x86_64-3.9/pandas/tests/api
    copying pandas/tests/api/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/api
    copying pandas/tests/api/test_api.py -> build/lib.linux-x86_64-3.9/pandas/tests/api
    copying pandas/tests/api/test_types.py -> build/lib.linux-x86_64-3.9/pandas/tests/api
    creating build/lib.linux-x86_64-3.9/pandas/tests/sparse
    copying pandas/tests/sparse/test_groupby.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
    copying pandas/tests/sparse/test_pivot.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
    copying pandas/tests/sparse/test_arithmetics.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
    copying pandas/tests/sparse/test_libsparse.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
    copying pandas/tests/sparse/test_array.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
    copying pandas/tests/sparse/test_combine_concat.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
    copying pandas/tests/sparse/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
    copying pandas/tests/sparse/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
    copying pandas/tests/sparse/test_format.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
    copying pandas/tests/sparse/test_reshape.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
    copying pandas/tests/sparse/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse
    creating build/lib.linux-x86_64-3.9/pandas/tests/io
    copying pandas/tests/io/test_packers.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
    copying pandas/tests/io/test_parquet.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
    copying pandas/tests/io/test_gbq.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
    copying pandas/tests/io/test_common.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
    copying pandas/tests/io/test_excel.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
    copying pandas/tests/io/test_pickle.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
    copying pandas/tests/io/test_clipboard.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
    copying pandas/tests/io/test_s3.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
    copying pandas/tests/io/conftest.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
    copying pandas/tests/io/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
    copying pandas/tests/io/test_sql.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
    copying pandas/tests/io/test_pytables.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
    copying pandas/tests/io/test_html.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
    copying pandas/tests/io/test_stata.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
    copying pandas/tests/io/generate_legacy_storage_files.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
    copying pandas/tests/io/test_feather.py -> build/lib.linux-x86_64-3.9/pandas/tests/io
    creating build/lib.linux-x86_64-3.9/pandas/tests/scalar
    copying pandas/tests/scalar/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar
    copying pandas/tests/scalar/test_nat.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar
    creating build/lib.linux-x86_64-3.9/pandas/tests/indexes
    copying pandas/tests/indexes/test_range.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
    copying pandas/tests/indexes/test_frozen.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
    copying pandas/tests/indexes/test_multi.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
    copying pandas/tests/indexes/conftest.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
    copying pandas/tests/indexes/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
    copying pandas/tests/indexes/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
    copying pandas/tests/indexes/test_category.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
    copying pandas/tests/indexes/test_numeric.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
    copying pandas/tests/indexes/datetimelike.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
    copying pandas/tests/indexes/test_base.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes
    creating build/lib.linux-x86_64-3.9/pandas/tests/plotting
    copying pandas/tests/plotting/test_groupby.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
    copying pandas/tests/plotting/test_hist_method.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
    copying pandas/tests/plotting/test_frame.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
    copying pandas/tests/plotting/test_deprecated.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
    copying pandas/tests/plotting/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
    copying pandas/tests/plotting/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
    copying pandas/tests/plotting/test_datetimelike.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
    copying pandas/tests/plotting/test_misc.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
    copying pandas/tests/plotting/test_series.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
    copying pandas/tests/plotting/test_converter.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
    copying pandas/tests/plotting/test_boxplot_method.py -> build/lib.linux-x86_64-3.9/pandas/tests/plotting
    creating build/lib.linux-x86_64-3.9/pandas/tests/tseries
    copying pandas/tests/tseries/test_holiday.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries
    copying pandas/tests/tseries/conftest.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries
    copying pandas/tests/tseries/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries
    copying pandas/tests/tseries/test_frequencies.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries
    creating build/lib.linux-x86_64-3.9/pandas/tests/reshape
    copying pandas/tests/reshape/test_pivot.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape
    copying pandas/tests/reshape/test_tile.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape
    copying pandas/tests/reshape/test_concat.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape
    copying pandas/tests/reshape/test_union_categoricals.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape
    copying pandas/tests/reshape/test_melt.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape
    copying pandas/tests/reshape/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape
    copying pandas/tests/reshape/test_util.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape
    copying pandas/tests/reshape/test_reshape.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape
    creating build/lib.linux-x86_64-3.9/pandas/tests/generic
    copying pandas/tests/generic/test_generic.py -> build/lib.linux-x86_64-3.9/pandas/tests/generic
    copying pandas/tests/generic/test_label_or_level_utils.py -> build/lib.linux-x86_64-3.9/pandas/tests/generic
    copying pandas/tests/generic/test_panel.py -> build/lib.linux-x86_64-3.9/pandas/tests/generic
    copying pandas/tests/generic/test_frame.py -> build/lib.linux-x86_64-3.9/pandas/tests/generic
    copying pandas/tests/generic/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/generic
    copying pandas/tests/generic/test_series.py -> build/lib.linux-x86_64-3.9/pandas/tests/generic
    creating build/lib.linux-x86_64-3.9/pandas/tests/indexing
    copying pandas/tests/indexing/test_categorical.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
    copying pandas/tests/indexing/test_scalar.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
    copying pandas/tests/indexing/test_iloc.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
    copying pandas/tests/indexing/test_ix.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
    copying pandas/tests/indexing/test_panel.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
    copying pandas/tests/indexing/test_callable.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
    copying pandas/tests/indexing/test_multiindex.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
    copying pandas/tests/indexing/test_floats.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
    copying pandas/tests/indexing/test_coercion.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
    copying pandas/tests/indexing/test_datetime.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
    copying pandas/tests/indexing/test_indexing_slow.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
    copying pandas/tests/indexing/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
    copying pandas/tests/indexing/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
    copying pandas/tests/indexing/test_partial.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
    copying pandas/tests/indexing/test_timedelta.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
    copying pandas/tests/indexing/test_chaining_and_caching.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
    copying pandas/tests/indexing/test_loc.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
    copying pandas/tests/indexing/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing
    creating build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_dtypes.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_mutate_columns.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_constructors.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_arithmetic.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_axis_select_reindex.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_missing.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_validate.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_rank.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_replace.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_apply.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_convert_to.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_quantile.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_to_csv.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_repr_info.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_sort_values_level_as_str.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_nonunique_indexes.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_timezones.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_combine_concat.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_analytics.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_period.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_alter_axes.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_query_eval.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_operators.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_subclass.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_join.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_timeseries.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_api.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_sorting.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_block_internals.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_asof.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_reshape.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    copying pandas/tests/frame/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/frame
    creating build/lib.linux-x86_64-3.9/pandas/tests/groupby/aggregate
    copying pandas/tests/groupby/aggregate/test_cython.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby/aggregate
    copying pandas/tests/groupby/aggregate/test_other.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby/aggregate
    copying pandas/tests/groupby/aggregate/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby/aggregate
    copying pandas/tests/groupby/aggregate/test_aggregate.py -> build/lib.linux-x86_64-3.9/pandas/tests/groupby/aggregate
    creating build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
    copying pandas/tests/series/indexing/test_alter_index.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
    copying pandas/tests/series/indexing/test_iloc.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
    copying pandas/tests/series/indexing/test_callable.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
    copying pandas/tests/series/indexing/test_datetime.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
    copying pandas/tests/series/indexing/conftest.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
    copying pandas/tests/series/indexing/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
    copying pandas/tests/series/indexing/test_boolean.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
    copying pandas/tests/series/indexing/test_loc.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
    copying pandas/tests/series/indexing/test_numeric.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
    copying pandas/tests/series/indexing/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/series/indexing
    creating build/lib.linux-x86_64-3.9/pandas/tests/extension/category
    copying pandas/tests/extension/category/test_categorical.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/category
    copying pandas/tests/extension/category/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/category
    creating build/lib.linux-x86_64-3.9/pandas/tests/extension/decimal
    copying pandas/tests/extension/decimal/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/decimal
    copying pandas/tests/extension/decimal/array.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/decimal
    copying pandas/tests/extension/decimal/test_decimal.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/decimal
    creating build/lib.linux-x86_64-3.9/pandas/tests/extension/base
    copying pandas/tests/extension/base/constructors.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
    copying pandas/tests/extension/base/reshaping.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
    copying pandas/tests/extension/base/getitem.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
    copying pandas/tests/extension/base/methods.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
    copying pandas/tests/extension/base/interface.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
    copying pandas/tests/extension/base/base.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
    copying pandas/tests/extension/base/setitem.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
    copying pandas/tests/extension/base/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
    copying pandas/tests/extension/base/missing.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
    copying pandas/tests/extension/base/dtype.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
    copying pandas/tests/extension/base/groupby.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
    copying pandas/tests/extension/base/casting.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/base
    creating build/lib.linux-x86_64-3.9/pandas/tests/extension/json
    copying pandas/tests/extension/json/test_json.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/json
    copying pandas/tests/extension/json/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/json
    copying pandas/tests/extension/json/array.py -> build/lib.linux-x86_64-3.9/pandas/tests/extension/json
    creating build/lib.linux-x86_64-3.9/pandas/tests/sparse/series
    copying pandas/tests/sparse/series/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/series
    copying pandas/tests/sparse/series/test_series.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/series
    copying pandas/tests/sparse/series/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/series
    creating build/lib.linux-x86_64-3.9/pandas/tests/sparse/frame
    copying pandas/tests/sparse/frame/test_to_from_scipy.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/frame
    copying pandas/tests/sparse/frame/test_frame.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/frame
    copying pandas/tests/sparse/frame/test_apply.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/frame
    copying pandas/tests/sparse/frame/test_to_csv.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/frame
    copying pandas/tests/sparse/frame/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/frame
    copying pandas/tests/sparse/frame/test_analytics.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/frame
    copying pandas/tests/sparse/frame/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/sparse/frame
    creating build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
    copying pandas/tests/io/msgpack/test_extension.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
    copying pandas/tests/io/msgpack/test_sequnpack.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
    copying pandas/tests/io/msgpack/test_subtype.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
    copying pandas/tests/io/msgpack/test_limits.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
    copying pandas/tests/io/msgpack/test_obj.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
    copying pandas/tests/io/msgpack/test_pack.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
    copying pandas/tests/io/msgpack/test_except.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
    copying pandas/tests/io/msgpack/test_newspec.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
    copying pandas/tests/io/msgpack/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
    copying pandas/tests/io/msgpack/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
    copying pandas/tests/io/msgpack/test_case.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
    copying pandas/tests/io/msgpack/test_seq.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
    copying pandas/tests/io/msgpack/test_read_size.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
    copying pandas/tests/io/msgpack/test_unpack.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
    copying pandas/tests/io/msgpack/test_buffer.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
    copying pandas/tests/io/msgpack/test_format.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
    copying pandas/tests/io/msgpack/test_unpack_raw.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/msgpack
    creating build/lib.linux-x86_64-3.9/pandas/tests/io/formats
    copying pandas/tests/io/formats/test_eng_formatting.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
    copying pandas/tests/io/formats/test_style.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
    copying pandas/tests/io/formats/test_css.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
    copying pandas/tests/io/formats/test_to_html.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
    copying pandas/tests/io/formats/test_to_csv.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
    copying pandas/tests/io/formats/test_printing.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
    copying pandas/tests/io/formats/test_to_latex.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
    copying pandas/tests/io/formats/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
    copying pandas/tests/io/formats/test_to_excel.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
    copying pandas/tests/io/formats/test_format.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/formats
    creating build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/test_textreader.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/test_network.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/mangle_dupes.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/c_parser_only.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/test_read_fwf.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/header.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/converters.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/na_values.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/test_unsupported.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/multithread.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/compression.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/python_parser_only.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/quoting.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/index_col.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/test_parsers.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/dtypes.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/skiprows.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/parse_dates.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/comment.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/usecols.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    copying pandas/tests/io/parser/dialect.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/parser
    creating build/lib.linux-x86_64-3.9/pandas/tests/io/json
    copying pandas/tests/io/json/test_pandas.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/json
    copying pandas/tests/io/json/test_normalize.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/json
    copying pandas/tests/io/json/test_compression.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/json
    copying pandas/tests/io/json/test_readlines.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/json
    copying pandas/tests/io/json/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/json
    copying pandas/tests/io/json/test_ujson.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/json
    copying pandas/tests/io/json/test_json_table_schema.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/json
    creating build/lib.linux-x86_64-3.9/pandas/tests/io/sas
    copying pandas/tests/io/sas/test_sas.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/sas
    copying pandas/tests/io/sas/test_xport.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/sas
    copying pandas/tests/io/sas/test_sas7bdat.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/sas
    copying pandas/tests/io/sas/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/io/sas
    creating build/lib.linux-x86_64-3.9/pandas/tests/scalar/timestamp
    copying pandas/tests/scalar/timestamp/test_unary_ops.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timestamp
    copying pandas/tests/scalar/timestamp/test_arithmetic.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timestamp
    copying pandas/tests/scalar/timestamp/test_comparisons.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timestamp
    copying pandas/tests/scalar/timestamp/test_timestamp.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timestamp
    copying pandas/tests/scalar/timestamp/test_timezones.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timestamp
    copying pandas/tests/scalar/timestamp/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timestamp
    copying pandas/tests/scalar/timestamp/test_rendering.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timestamp
    creating build/lib.linux-x86_64-3.9/pandas/tests/scalar/period
    copying pandas/tests/scalar/period/test_asfreq.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/period
    copying pandas/tests/scalar/period/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/period
    copying pandas/tests/scalar/period/test_period.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/period
    creating build/lib.linux-x86_64-3.9/pandas/tests/scalar/timedelta
    copying pandas/tests/scalar/timedelta/test_arithmetic.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timedelta
    copying pandas/tests/scalar/timedelta/test_formats.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timedelta
    copying pandas/tests/scalar/timedelta/test_construction.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timedelta
    copying pandas/tests/scalar/timedelta/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timedelta
    copying pandas/tests/scalar/timedelta/test_timedelta.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/timedelta
    creating build/lib.linux-x86_64-3.9/pandas/tests/scalar/interval
    copying pandas/tests/scalar/interval/test_interval.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/interval
    copying pandas/tests/scalar/interval/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/scalar/interval
    creating build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
    copying pandas/tests/indexes/period/test_asfreq.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
    copying pandas/tests/indexes/period/test_arithmetic.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
    copying pandas/tests/indexes/period/test_ops.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
    copying pandas/tests/indexes/period/test_tools.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
    copying pandas/tests/indexes/period/test_setops.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
    copying pandas/tests/indexes/period/test_period_range.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
    copying pandas/tests/indexes/period/test_formats.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
    copying pandas/tests/indexes/period/test_construction.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
    copying pandas/tests/indexes/period/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
    copying pandas/tests/indexes/period/test_period.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
    copying pandas/tests/indexes/period/test_astype.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
    copying pandas/tests/indexes/period/test_scalar_compat.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
    copying pandas/tests/indexes/period/test_partial_slicing.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
    copying pandas/tests/indexes/period/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/period
    creating build/lib.linux-x86_64-3.9/pandas/tests/indexes/interval
    copying pandas/tests/indexes/interval/test_interval_new.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/interval
    copying pandas/tests/indexes/interval/test_interval.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/interval
    copying pandas/tests/indexes/interval/test_construction.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/interval
    copying pandas/tests/indexes/interval/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/interval
    copying pandas/tests/indexes/interval/test_interval_range.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/interval
    copying pandas/tests/indexes/interval/test_interval_tree.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/interval
    copying pandas/tests/indexes/interval/test_astype.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/interval
    creating build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
    copying pandas/tests/indexes/timedeltas/test_arithmetic.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
    copying pandas/tests/indexes/timedeltas/test_ops.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
    copying pandas/tests/indexes/timedeltas/test_tools.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
    copying pandas/tests/indexes/timedeltas/test_setops.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
    copying pandas/tests/indexes/timedeltas/test_formats.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
    copying pandas/tests/indexes/timedeltas/test_construction.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
    copying pandas/tests/indexes/timedeltas/test_timedelta_range.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
    copying pandas/tests/indexes/timedeltas/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
    copying pandas/tests/indexes/timedeltas/test_timedelta.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
    copying pandas/tests/indexes/timedeltas/test_astype.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
    copying pandas/tests/indexes/timedeltas/test_scalar_compat.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
    copying pandas/tests/indexes/timedeltas/test_partial_slicing.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
    copying pandas/tests/indexes/timedeltas/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/timedeltas
    creating build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
    copying pandas/tests/indexes/datetimes/test_arithmetic.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
    copying pandas/tests/indexes/datetimes/test_missing.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
    copying pandas/tests/indexes/datetimes/test_ops.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
    copying pandas/tests/indexes/datetimes/test_tools.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
    copying pandas/tests/indexes/datetimes/test_setops.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
    copying pandas/tests/indexes/datetimes/test_timezones.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
    copying pandas/tests/indexes/datetimes/test_formats.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
    copying pandas/tests/indexes/datetimes/test_date_range.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
    copying pandas/tests/indexes/datetimes/test_datetime.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
    copying pandas/tests/indexes/datetimes/test_construction.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
    copying pandas/tests/indexes/datetimes/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
    copying pandas/tests/indexes/datetimes/test_datetimelike.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
    copying pandas/tests/indexes/datetimes/test_misc.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
    copying pandas/tests/indexes/datetimes/test_astype.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
    copying pandas/tests/indexes/datetimes/test_scalar_compat.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
    copying pandas/tests/indexes/datetimes/test_partial_slicing.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
    copying pandas/tests/indexes/datetimes/test_indexing.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexes/datetimes
    creating build/lib.linux-x86_64-3.9/pandas/tests/tseries/offsets
    copying pandas/tests/tseries/offsets/test_offsets.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries/offsets
    copying pandas/tests/tseries/offsets/test_fiscal.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries/offsets
    copying pandas/tests/tseries/offsets/conftest.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries/offsets
    copying pandas/tests/tseries/offsets/common.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries/offsets
    copying pandas/tests/tseries/offsets/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries/offsets
    copying pandas/tests/tseries/offsets/test_ticks.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries/offsets
    copying pandas/tests/tseries/offsets/test_yqm_offsets.py -> build/lib.linux-x86_64-3.9/pandas/tests/tseries/offsets
    creating build/lib.linux-x86_64-3.9/pandas/tests/reshape/merge
    copying pandas/tests/reshape/merge/test_merge.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape/merge
    copying pandas/tests/reshape/merge/test_merge_ordered.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape/merge
    copying pandas/tests/reshape/merge/test_merge_index_as_string.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape/merge
    copying pandas/tests/reshape/merge/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape/merge
    copying pandas/tests/reshape/merge/test_merge_asof.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape/merge
    copying pandas/tests/reshape/merge/test_join.py -> build/lib.linux-x86_64-3.9/pandas/tests/reshape/merge
    creating build/lib.linux-x86_64-3.9/pandas/tests/indexing/interval
    copying pandas/tests/indexing/interval/test_interval_new.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing/interval
    copying pandas/tests/indexing/interval/test_interval.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing/interval
    copying pandas/tests/indexing/interval/__init__.py -> build/lib.linux-x86_64-3.9/pandas/tests/indexing/interval
    creating build/lib.linux-x86_64-3.9/pandas/core/groupby
    copying pandas/core/groupby/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core/groupby
    copying pandas/core/groupby/groupby.py -> build/lib.linux-x86_64-3.9/pandas/core/groupby
    creating build/lib.linux-x86_64-3.9/pandas/core/util
    copying pandas/core/util/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core/util
    copying pandas/core/util/hashing.py -> build/lib.linux-x86_64-3.9/pandas/core/util
    creating build/lib.linux-x86_64-3.9/pandas/core/dtypes
    copying pandas/core/dtypes/inference.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
    copying pandas/core/dtypes/generic.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
    copying pandas/core/dtypes/base.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
    copying pandas/core/dtypes/concat.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
    copying pandas/core/dtypes/common.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
    copying pandas/core/dtypes/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
    copying pandas/core/dtypes/cast.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
    copying pandas/core/dtypes/missing.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
    copying pandas/core/dtypes/dtypes.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
    copying pandas/core/dtypes/api.py -> build/lib.linux-x86_64-3.9/pandas/core/dtypes
    creating build/lib.linux-x86_64-3.9/pandas/core/tools
    copying pandas/core/tools/numeric.py -> build/lib.linux-x86_64-3.9/pandas/core/tools
    copying pandas/core/tools/timedeltas.py -> build/lib.linux-x86_64-3.9/pandas/core/tools
    copying pandas/core/tools/datetimes.py -> build/lib.linux-x86_64-3.9/pandas/core/tools
    copying pandas/core/tools/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core/tools
    creating build/lib.linux-x86_64-3.9/pandas/core/computation
    copying pandas/core/computation/expr.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
    copying pandas/core/computation/align.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
    copying pandas/core/computation/check.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
    copying pandas/core/computation/scope.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
    copying pandas/core/computation/pytables.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
    copying pandas/core/computation/common.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
    copying pandas/core/computation/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
    copying pandas/core/computation/ops.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
    copying pandas/core/computation/engines.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
    copying pandas/core/computation/api.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
    copying pandas/core/computation/expressions.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
    copying pandas/core/computation/eval.py -> build/lib.linux-x86_64-3.9/pandas/core/computation
    creating build/lib.linux-x86_64-3.9/pandas/core/sparse
    copying pandas/core/sparse/scipy_sparse.py -> build/lib.linux-x86_64-3.9/pandas/core/sparse
    copying pandas/core/sparse/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core/sparse
    copying pandas/core/sparse/series.py -> build/lib.linux-x86_64-3.9/pandas/core/sparse
    copying pandas/core/sparse/array.py -> build/lib.linux-x86_64-3.9/pandas/core/sparse
    copying pandas/core/sparse/api.py -> build/lib.linux-x86_64-3.9/pandas/core/sparse
    copying pandas/core/sparse/frame.py -> build/lib.linux-x86_64-3.9/pandas/core/sparse
    creating build/lib.linux-x86_64-3.9/pandas/core/arrays
    copying pandas/core/arrays/base.py -> build/lib.linux-x86_64-3.9/pandas/core/arrays
    copying pandas/core/arrays/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core/arrays
    copying pandas/core/arrays/categorical.py -> build/lib.linux-x86_64-3.9/pandas/core/arrays
    creating build/lib.linux-x86_64-3.9/pandas/core/indexes
    copying pandas/core/indexes/accessors.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
    copying pandas/core/indexes/interval.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
    copying pandas/core/indexes/numeric.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
    copying pandas/core/indexes/frozen.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
    copying pandas/core/indexes/timedeltas.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
    copying pandas/core/indexes/multi.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
    copying pandas/core/indexes/base.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
    copying pandas/core/indexes/period.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
    copying pandas/core/indexes/datetimes.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
    copying pandas/core/indexes/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
    copying pandas/core/indexes/category.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
    copying pandas/core/indexes/range.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
    copying pandas/core/indexes/api.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
    copying pandas/core/indexes/datetimelike.py -> build/lib.linux-x86_64-3.9/pandas/core/indexes
    creating build/lib.linux-x86_64-3.9/pandas/core/reshape
    copying pandas/core/reshape/pivot.py -> build/lib.linux-x86_64-3.9/pandas/core/reshape
    copying pandas/core/reshape/reshape.py -> build/lib.linux-x86_64-3.9/pandas/core/reshape
    copying pandas/core/reshape/util.py -> build/lib.linux-x86_64-3.9/pandas/core/reshape
    copying pandas/core/reshape/concat.py -> build/lib.linux-x86_64-3.9/pandas/core/reshape
    copying pandas/core/reshape/__init__.py -> build/lib.linux-x86_64-3.9/pandas/core/reshape
    copying pandas/core/reshape/tile.py -> build/lib.linux-x86_64-3.9/pandas/core/reshape
    copying pandas/core/reshape/melt.py -> build/lib.linux-x86_64-3.9/pandas/core/reshape
    copying pandas/core/reshape/api.py -> build/lib.linux-x86_64-3.9/pandas/core/reshape
    copying pandas/core/reshape/merge.py -> build/lib.linux-x86_64-3.9/pandas/core/reshape
    creating build/lib.linux-x86_64-3.9/pandas/io/formats/templates
    copying pandas/io/formats/templates/html.tpl -> build/lib.linux-x86_64-3.9/pandas/io/formats/templates
    UPDATING build/lib.linux-x86_64-3.9/pandas/_version.py
    set build/lib.linux-x86_64-3.9/pandas/_version.py to '0.23.4'
    running build_ext
    pandas._libs.algos: -> [['pandas/_libs/algos.c']]
    Traceback (most recent call last):
      File "<string>", line 1, in <module>
      File "/tmp/pip-install-y5acgmq1/pandas_96412d7fcf2347fe8e58174ad497cb89/setup.py", line 733, in <module>
        setup(name=DISTNAME,
      File "/home/lailab/miniconda3/envs/scrna/lib/python3.9/site-packages/setuptools/__init__.py", line 163, in setup
        return distutils.core.setup(**attrs)
      File "/home/lailab/miniconda3/envs/scrna/lib/python3.9/distutils/core.py", line 148, in setup
        dist.run_commands()
      File "/home/lailab/miniconda3/envs/scrna/lib/python3.9/distutils/dist.py", line 966, in run_commands
        self.run_command(cmd)
      File "/home/lailab/miniconda3/envs/scrna/lib/python3.9/distutils/dist.py", line 985, in run_command
        cmd_obj.run()
      File "/home/lailab/miniconda3/envs/scrna/lib/python3.9/site-packages/setuptools/command/install.py", line 61, in run
        return orig.install.run(self)
      File "/home/lailab/miniconda3/envs/scrna/lib/python3.9/distutils/command/install.py", line 546, in run
        self.run_command('build')
      File "/home/lailab/miniconda3/envs/scrna/lib/python3.9/distutils/cmd.py", line 313, in run_command
        self.distribution.run_command(command)
      File "/home/lailab/miniconda3/envs/scrna/lib/python3.9/distutils/dist.py", line 985, in run_command
        cmd_obj.run()
      File "/home/lailab/miniconda3/envs/scrna/lib/python3.9/distutils/command/build.py", line 135, in run
        self.run_command(cmd_name)
      File "/home/lailab/miniconda3/envs/scrna/lib/python3.9/distutils/cmd.py", line 313, in run_command
        self.distribution.run_command(command)
      File "/home/lailab/miniconda3/envs/scrna/lib/python3.9/distutils/dist.py", line 985, in run_command
        cmd_obj.run()
      File "/home/lailab/miniconda3/envs/scrna/lib/python3.9/distutils/command/build_ext.py", line 340, in run
        self.build_extensions()
      File "/tmp/pip-install-y5acgmq1/pandas_96412d7fcf2347fe8e58174ad497cb89/setup.py", line 377, in build_extensions
        self.check_cython_extensions(self.extensions)
      File "/tmp/pip-install-y5acgmq1/pandas_96412d7fcf2347fe8e58174ad497cb89/setup.py", line 371, in check_cython_extensions
        raise Exception("""Cython-generated file '{src}' not found.
    Exception: Cython-generated file 'pandas/_libs/algos.c' not found.
                    Cython is required to compile pandas from a development branch.
                    Please install Cython or download a release package of pandas.
    
    ----------------------------------------
ERROR: Command errored out with exit status 1: /home/lailab/miniconda3/envs/scrna/bin/python3.9 -u -c 'import io, os, sys, setuptools, tokenize; sys.argv[0] = '"'"'/tmp/pip-install-y5acgmq1/pandas_96412d7fcf2347fe8e58174ad497cb89/setup.py'"'"'; __file__='"'"'/tmp/pip-install-y5acgmq1/pandas_96412d7fcf2347fe8e58174ad497cb89/setup.py'"'"';f = getattr(tokenize, '"'"'open'"'"', open)(__file__) if os.path.exists(__file__) else io.StringIO('"'"'from setuptools import setup; setup()'"'"');code = f.read().replace('"'"'\r\n'"'"', '"'"'\n'"'"');f.close();exec(compile(code, __file__, '"'"'exec'"'"'))' install --record /tmp/pip-record-upxjfamf/install-record.txt --single-version-externally-managed --compile --install-headers /home/lailab/miniconda3/envs/scrna/include/python3.9/pandas Check the logs for full command output

请问应该怎么解决呢？我服务器上有安装好诸如STAR之类软件的环境，在安装celescope时需要在新环境重新安装这些软件吗？
谢谢！

Recommend Projects

React

A declarative, efficient, and flexible JavaScript library for building user interfaces.
Vue.js

🖖 Vue.js is a progressive, incrementally-adoptable JavaScript framework for building UI on the web.
Typescript

TypeScript is a superset of JavaScript that compiles to clean JavaScript output.
TensorFlow

An Open Source Machine Learning Framework for Everyone
Django

The Web framework for perfectionists with deadlines.
Laravel

A PHP framework for web artisans
D3

Bring data to life with SVG, Canvas and HTML. 📊📈🎉

Recommend Topics

javascript

JavaScript (JS) is a lightweight interpreted programming language with first-class functions.
web

Some thing interesting about web. New door for the world.
server

A server is a program made to process requests and deliver data to clients.
Machine learning

Machine learning is a way of modeling and interpreting data that allows a piece of software to respond intelligently.
Visualization

Some thing interesting about visualization, use data art
Game

Some thing interesting about game, make everyone happy.

Recommend Org

Facebook

We are working to build community through open source technology. NB: members must have two-factor auth.
Microsoft

Open source projects and samples from Microsoft.
Google

Google ❤️ Open Source for everyone.
Alibaba

Alibaba Open Source for everyone
D3

Data-Driven Documents codes.
Tencent

China tencent open source team.