Comments (2)
Hey,
the cropping is probably only done in the error message, I can hardly imagine STAR doing something as substantial as this without giving a warning at least.
For the length inequality problem there are some related issues - maybe one of them applies to your data:
- Real length inequality
- Potential invisible characters, could also be related to windows
- Messed-up file formatting, potentially related to trimming
- Something related to nanopore sequencing
- Multi-line FastQs
- GZ corruption
- Inconsistencies in paired-end usage
However, this problem is most likely not related to our pipeline and should thus be checked by running STAR on your data without the pipeline
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Closing this for now, feel free to re-open if the problems persist
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Related Issues (20)
- Implement circbase HOT 1
- Implement circatlas HOT 1
- Implement circbank HOT 1
- Implement circRNADisease HOT 1
- Implement polyA-Benchmarking
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- Deprecate the `module` parameter
- Add `psirc quant` output to MulitQC via `kallisto` module
- Problems with empty annotation intersection HOT 12
- GTF entries on sequence which is not present in FASTA HOT 11
- GTF file not found with CIRIquant HOT 4
- SOLUTION: re-run with at least --limitSjdbInsertNsj HOT 11
- FATAL: the requested image was not found HOT 1
- ERROR ~ Invalid method invocation `call` with arguments using DCC HOT 1
- pandas.errors.EmptyDataError: No columns to parse from file
- Error executing process > 'NFCORE_CIRCRNA:CIRCRNA:MIRNA_PREDICTION:TARGETSCAN
- How can I accelerate the TARGETSCAN process when dealing with an excessive number of sequences that takes a long time? HOT 4
- Add circMiner circRNA detection
- When running on the sponging branch, there is an error in the annotation part. HOT 5
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