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richelbilderbeek / ticket_287014

Ticket 287014
GNU General Public License v3.0
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No workDir #1

Closed richelbilderbeek closed 7 months ago

richelbilderbeek commented 7 months ago 
[richel@rackham1 MetONTIIME]$ cat nextflow_8mar.log
Mar-08 15:21:46.354 [main] DEBUG nextflow.cli.Launcher - $> nextflow -c /crex/proj/naiss2023-22-866/MetONTIIME/metontiime2.conf run metontiime2.nf --workDir= --resultsDir=/crex/proj/naiss2023-22-866/MetONTIIME/Output --dbSequencesFasta=/crex/proj/naiss2023-22-866/Illumina_Qiime2_and_BLAST/sh_refs_qiime_ver9_dynamic_all_25.07.2023.fasta --sampleMetadata= --dbTaxonomyTsv=/crex/proj/naiss2023-22-866/MetONTIIME/noheader_taxonomy_qiime_ver9_dynamic_alleukaryotes_25.07.2023.tsv -profile singularity

Notice the --workDir=: it is empty.

richelbilderbeek commented 7 months ago

Als in less metontiime_8mar.out:

 [created conf file]
work_dir: 
results_dir: /crex/proj/naiss2023-22-866/MetONTIIME/Output
richelbilderbeek commented 7 months ago

Fixed with https://github.com/richelbilderbeek/ticket_287014/commit/0e829102dd5236864c21ca2d938dbaf525e16443