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I'm using the pipeline, but I'm getting an error when trying to run it with my single-end data in the samplesheet file. I wanted to know if anyone has had a similar error and how you solved it please so you can explain it to me.
Thank you so much.
Command used and terminal output
nextflow run nf-core/rnasplice --input samplesheet.csv --source fastq --contrasts contrastsheet.csv --outdir /home/fcr/proyecto_p1/parte2/results_RNAsplice4 --genome GRCh37 -profile dockerTERMINAL OUTPUTExecution cancelled -- Finishing pending tasks before exit-[nf-core/rnasplice] Pipeline completed with errors-WARN: The operator `first` is useless when applied to a value channel which returns a single value by definitionERROR ~ Error executing process > 'NFCORE_RNASPLICE:RNASPLICE:INPUT_CHECK:SAMPLESHEET_CHECK (samplesheet.csv)'Caused by: Process `NFCORE_RNASPLICE:RNASPLICE:INPUT_CHECK:SAMPLESHEET_CHECK (samplesheet.csv)` terminated with an error exit status (1)Command executed: check_samplesheet_fastq.py samplesheet.csv samplesheet.valid.csv cat <<-END_VERSIONS > versions.yml "NFCORE_RNASPLICE:RNASPLICE:INPUT_CHECK:SAMPLESHEET_CHECK": python: $(python --version | sed 's/Python //g') END_VERSIONSCommand exit status: 1Command output: (empty)Command error: [CRITICAL] The sample sheet **must** contain these column headers: strandedness, fastq_2, sample, condition, fastq_1.Work dir: /home/fcr/proyecto_p1/parte2/work/12/d830cb6b9c9f0807c2a5da281ea1adTip: you can replicate the issue by changing to the process work dir and entering the command `bash .command.run` -- Check '.nextflow.log' file for details
Relevant files
This is my samplesheet.csv file:
sample,fastq_1,strandedness,condition
SRR10503052,/home/fcr/proyecto_p1/parte2/SRR10503052_1.fastq.gz,unstranded,BR0
SRR10503053,/home/fcr/proyecto_p1/parte2/SRR10503053_1.fastq.gz,unstranded,BR0
SRR10503054,/home/fcr/proyecto_p1/parte2/SRR10503054_1.fastq.gz,unstranded,BR0
SRR10503095,/home/fcr/proyecto_p1/parte2/SRR10503095_1.fastq.gz,unstranded,BR15
SRR10503096,/home/fcr/proyecto_p1/parte2/SRR10503096_1.fastq.gz,unstranded,BR15
SRR10503097,/home/fcr/proyecto_p1/parte2/SRR10503097_1.fastq.gz,unstranded,BR15
System information
No response
The text was updated successfully, but these errors were encountered:
Description of the bug
I'm using the pipeline, but I'm getting an error when trying to run it with my single-end data in the samplesheet file. I wanted to know if anyone has had a similar error and how you solved it please so you can explain it to me.
Thank you so much.
Command used and terminal output
Relevant files
This is my samplesheet.csv file:
sample,fastq_1,strandedness,condition
SRR10503052,/home/fcr/proyecto_p1/parte2/SRR10503052_1.fastq.gz,unstranded,BR0
SRR10503053,/home/fcr/proyecto_p1/parte2/SRR10503053_1.fastq.gz,unstranded,BR0
SRR10503054,/home/fcr/proyecto_p1/parte2/SRR10503054_1.fastq.gz,unstranded,BR0
SRR10503095,/home/fcr/proyecto_p1/parte2/SRR10503095_1.fastq.gz,unstranded,BR15
SRR10503096,/home/fcr/proyecto_p1/parte2/SRR10503096_1.fastq.gz,unstranded,BR15
SRR10503097,/home/fcr/proyecto_p1/parte2/SRR10503097_1.fastq.gz,unstranded,BR15
System information
No response
The text was updated successfully, but these errors were encountered: