Hi,
May I ask a question? when I run the following command with shell in Linux, the
parallel worked. However, after running two times, it did not work anymore with
error “parallel: command not found”.
parallel -j 1 --link 'kneaddata -i {1} -i {2} -o kneaddata_out/ \
-db /home/shared/bowtiedb/GRCh38_PhiX --trimmomatic
/usr/local/prg/Trimmomatic-0.36/ \
-t 4 --trimmomatic-options "SLIDINGWINDOW:4:20 MINLEN:50" \
--bowtie2-options "--very-sensitive --dovetail" --remove-intermediate-output' \
::: raw_data/*_R1.fastq ::: raw_data/*_R2.fastq
What's the problem? If the parallel is not installed yet, why can it be run at
beginning?
Thank you very much.
Best regards,
Wang
