Comments (7)
Hey @marwa38
It appears your contrast sheet uses Windows line endings (CRLF). Please can you convert it to Unix line endings (LF) using something like dos2unix or Notepad++ (see here for a small tutorial).
Thanks,
James
from rnasplice.
Thanks for your message.
I followed that but it is not working and getting the same error. Here are files changed to unix.
samplesheet.csv
contrast.csv
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Hey @marwa38
It appears you correctly changed the line endings, but saved your file as UTF-8 with BOM encoding. Make sure to convert to just UTF-8 by following the instructions here.
Thanks,
James
from rnasplice.
I can't see that option available in Notepad++ without BIOM
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Hey @marwa38
You can try the 'Convert to UTF-8' option. Then save the file and make sure not to open or edit it in anything else on the Windows system.
Thanks,
James
from rnasplice.
It is working thanks so much :))
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Related Issues (20)
- link to example contrastsheet.csv is not working HOT 1
- Empty output for BAM+rMats HOT 2
- make contrasts file names consistent with those of the differentialabundance pipeline HOT 1
- Missing rMATS arguments HOT 2
- DEXSeq-DTU Stager pScreenAdjusted HOT 1
- sashimi_plot error HOT 2
- EXITING because of FATAL ERROR: Genome version: 20201 is INCOMPATIBLE with running STAR version: 2.7.9a HOT 2
- MISO error HOT 3
- The processes for splitting files are running very slowly with large numbers of input samples HOT 5
- Error: suppa_split_file.R Input_file must contain samplesheet samples. HOT 2
- ERROR ~ Error executing process > 'NFCORE_RNASPLICE:RNASPLICE:DRIMSEQ_DEXSEQ_DTU_SALMON:DRIMSEQ_FILTER (1)' HOT 11
- Error in DRIMSeq::dmDSdata(counts = counts, samples = samps) HOT 3
- Error single-end execution HOT 1
- Error in SUPPA: Clustergroups are assigned incorrectly HOT 4
- Miso error HOT 8
- `NFCORE_RNASPLICE:RNASPLICE:DRIMSEQ_DEXSEQ_DTU_SALMON:DEXSEQ_DTU (1)` HOT 7
- RNA splice output
- Merged genes output HOT 3
- STAGER error: subscript out of bounds HOT 4
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