fail to reload the data about immunarch

[vadimnazarov]

Hi, can you please attach first 3-5 lines from your file data_vdjtool/c.1.txt?

Also can you please try
repLoad("data_vdjtool")

and see if it works

[shine333]

Still didn't work...

head(c1)
count freq cdr3nt
1 1170631 0.07028632 TGTGCCAGCAGTGCGGCAGATGGGCTGTTTTTT
2 579774 0.03481044 TGTGCCAGCCGGACAGATCACTATGGCTACACCTTC
3 551102 0.03308893 TGTGCCAGCACGCTGGACAGCTATAGCAATCAGCCCCAGCATTTT
4 511834 0.03073123 TGTGCCACCAGTGATTACGGGGTCGGTGGCTACACCTTC
5 367842 0.02208575 TGTGCCAGCACGCTGGACAGCTATAGCAATCAGCCCCAGCATTTT
6 231363 0.01389136 TGTGCCACCAGCCCCCCCGACAGGGAAGAGACCCAGTACTTC
cdr3aa v d j VEnd DStart DEnd JStart
1 CASSAADGLFF TRBV12-3 TRBD2 TRBJ2-2 11 12 18 23
2 CASRTDHYGYTF TRBV6-1 TRBD1 TRBJ1-2 8 10 15 19
3 CASTLDSYSNQPQHF TRBV6-1 TRBD1 TRBJ1-5 9 14 19 23
4 CATSDYGVGGYTF TRBV24-1 TRBD1 TRBJ1-2 15 18 21 26
5 CASTLDSYSNQPQHF TRBV6-2 TRBD1 TRBJ1-5 9 14 19 23
6 CATSPPDREETQYF TRBV15 TRBD1 TRBJ2-5 11 18 24 25
test <- repLoad("data_vdjtool")
Parsing data_vdjtool ...
Parsing data_vdjtool/1.txt -- vdjtools
Error in $<-.data.frame(*tmp*, "Proportion", value = numeric(0)) :
replacement has 0 rows, data has 143053

[vadimnazarov]

Thank you, can you please send 3-5 lines from the file as a file? I just a want a tiny copy of your file to fully reproduce your error and I don't need all lines, just first lines with a header and a couple of clonotypes

[shine333]

Please check the file. Thank you . ------------------ Original ------------------ From: "Vadim Nazarov"<[email protected]>; Date: Wed, Apr 3, 2019 09:47 PM To: "immunomind/immunarch"<[email protected]>; Cc: "Shiny"<[email protected]>; "Author"<[email protected]>; Subject: Re: [immunomind/immunarch] fail to reload the data (#1) Thank you, can you please send 3-5 lines from the file as a file? I just a want a tiny copy of your file to fully reproduce your error and I don't need all lines, just first lines with a header and a couple of clonotypes — You are receiving this because you authored the thread. Reply to this email directly, view it on GitHub, or mute the thread.

[vadimnazarov]

Hi, I think the file didnt get attached, can you please attach it via GitHub interface? You just need drag-n-drop the file into the comment section, and that's it, I will check it ASAP.

[shine333]

c1.txt

[vadimnazarov]

Hi, please check the new version here, I fixed it:
immunarch_0.3.1.tar.gz

Download the file and install it as usual:

devtools::install_local("path/to/your/folder/with/immunarch_0.3.1.tar.gz", dependencies=T)

[vadimnazarov]

Closing for now, seems working. Please re-open it and the issue persists.