Closed
Description
Samplesheet:
sample,fastq_1,fastq_2
GM0h_REP1,../data/groseq_raw/GM0h.fastq.gz,
Data available here:
Error:
Caused by:
Process `NFCORE_NASCENT:NASCENT:GROHMM:GROHMM_TRANSCRIPTCALLING (GM0h)` terminated with an error exit status (1)
Command executed:
transcriptcalling_grohmm.R \
--bam_file GM0h.sorted.bam \
\
--outprefix GM0h \
--gtf genes.gtf \ --outdir ./ \
--cores 12 \
cat <<-END_VERSIONS > versions.yml
"NFCORE_NASCENT:NASCENT:GROHMM:GROHMM_TRANSCRIPTCALLING":
r-base: $(echo $(R --version 2>&1) | sed 's/^.*R version //; s/ .*$//')
bioconductor-grohmm: $(Rscript -e "library(groHMM); cat(as.character(packageVersion('groHMM')))")
END_VERSIONS
Command exit status:
1
Command output:
(empty)
Command error:
Error in Fp[[i]] + 1 : non-numeric argument to binary operator
Calls: detectTranscripts
In addition: Warning messages:
1: In mclapply(readsList, function(x) { :
all scheduled cores encountered errors in user code
2: In mclapply(readsList, function(x) { :
all scheduled cores encountered errors in user code
Execution halted
Work dir:
/petastore/ganymede/home/eam150030/nascent/work/f0/e794715b51ad2b1036c36c8fb7b410
Tip: view the complete command output by changing to the process work dir and entering the command `cat .command.out`