search

lentendu / DeltaMP

A flexible, reproducible and resource efficient metabarcoding amplicon pipeline for HPC
GNU General Public License v3.0
2 stars 1 forks source link

Problem with restart from step when cut_db in the steps #173

Open lentendu opened 1 year ago

lentendu commented 1 year ago

deltamp -r trim configuration_GritCrust_18S.tsv sort: cannot read: config/cut_db.files: No such file or directory sort: cannot read: config/cut_db.dir: No such file or directory rmdir: failed to remove '/cluster/raid/home/lentendug/Documents/DeltaMP/GritCrust_Illumina_18S_13015979/archives': Directory not empty rmdir: failed to remove '/cluster/raid/home/lentendug/Documents/DeltaMP/GritCrust_Illumina_18S_13015979/libraries': Directory not empty rmdir: failed to remove '/cluster/raid/home/lentendug/Documents/DeltaMP/GritCrust_Illumina_18S_13015979/libraries/fastq': Directory not empty rmdir: failed to remove '/cluster/raid/home/lentendug/Documents/DeltaMP/GritCrust_Illumina_18S_13015979/processing': Directory not empty sed: can't read config/steps.final: No such file or directory sed: can't read config/steps.final: No such file or directory /cluster/raid/home/lentendug/softwares/DeltaMP/new/bin/restart_from_step: line 116: config/old_jobid.1669557900: No such file or directory sed: can't read config/jobid: No such file or directory mv: cannot move 'jobid.tmp2' to 'config/jobid': No such file or directory Cleaned steps: trim asv OTU id end processing_archiver output_archiver fastq_archiver doc

execution of deltamp version 0.5 for the SUBPROJECT GritCrust_Illumina_18S_13015979, restarting at step trim