Updated pfr params

Plant-Food-Research-Open · Sep 27, 2024 · 745bae8 · 745bae8
1 parent 287916e
commit 745bae8
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Showing 2 changed files with 6 additions and 6 deletions.
diff --git a/pfr/params.json b/pfr/params.json
@@ -3,8 +3,8 @@
     "protein_evidence": "/workspace/genepal/testdata/0.4.0/external-protein-fastas.txt",
     "eggnogmapper_db_dir": "/workspace/ComparativeDataSources/emapperdb/5.0.2",
     "eggnogmapper_tax_scope": 33090,
-    "rna_evidence": "/workspace/genepal/testdata/0.4.0/fastqsheet.csv",
+    "rna_evidence": "/workspace/genepal/testdata/0.4.0/rnasheet.csv",
     "liftoff_annotations": "/workspace/genepal/testdata/0.4.0/liftoffannotations.csv",
-    "outdir": "results",
-    "busco_lineage_datasets": "embryophyta_odb10"
+    "busco_lineage_datasets": "embryophyta_odb10",
+    "outdir": "results"
 }
diff --git a/pfr_genepal b/pfr_genepal
@@ -26,9 +26,8 @@ while getopts "t" opt; do
 done
 shift $((OPTIND -1))
 
-ml unload perl
 ml apptainer/1.1
-ml nextflow/23.04.4
+ml nextflow/24.04.3
 
 export TMPDIR="/workspace/$USER/tmp"
 export APPTAINER_BINDPATH="$APPTAINER_BINDPATH,$TMPDIR:$TMPDIR,$TMPDIR:/tmp"
@@ -38,7 +37,8 @@ if [ $full_test_flag -eq 1 ]; then
         main.nf \
         -c pfr/profile.config \
         -profile pfr,apptainer,test_full \
-        -resume
+        -resume \
+        --outdir results
 else
     nextflow \
         main.nf \