Fixed log output for preprocessing

nf-core · Nov 13, 2024 · e67107d · e67107d
1 parent a8da0e3
commit e67107d
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Showing 2 changed files with 3 additions and 3 deletions.
diff --git a/conf/modules.config b/conf/modules.config
@@ -42,7 +42,7 @@ process {
             [
                 path:    { "${params.outdir}/preprocess/${task.tag}/logs" },
                 mode:    params.publish_dir_mode,
-                pattern: '*.log',
+                pattern: '**.log',
                 enabled: params.publish_dir_enabled
             ],
             [

diff --git a/modules/local/force-preprocess/main.nf b/modules/local/force-preprocess/main.nf
@@ -11,7 +11,7 @@ process FORCE_PREPROCESS {
     output:
     path "**/*BOA.tif", optional:true, emit: boa_tiles
     path "**/*QAI.tif", optional:true, emit: qai_tiles
-    path "*.log"                     , emit: log
+    path "**.log"                    , emit: log
     path "versions.yml"              , emit: versions
 
     when:
@@ -36,7 +36,7 @@ process FORCE_PREPROCESS {
 
     FILEPATH=$data
     BASE=\$(basename $data)
-    force-l2ps \$FILEPATH \$PARAM > level2_log\$BASE.log
+    force-l2ps \$FILEPATH \$PARAM > level2_log/\$BASE.log
 
     cat <<-END_VERSIONS > versions.yml
     "${task.process}":