Merge branch 'template_532' into 'dev'

Template v5.3.2 See merge request epi2melabs/workflows/wf-basecalling!101
epi2me-labs · Dec 3, 2024 · a170fe9 · a170fe9
2 parents 9c0f9db + e2336b2
commit a170fe9
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Showing 11 changed files with 4 additions and 1 deletion.
diff --git a/base.config b/base.config
@@ -4,7 +4,7 @@ params {
         container_sha_basecalling = "sha8bc19cc3c78c1ce847fbf4a879cad997b7e8c430"
         bonito_container = "ontresearch/bonito"
         bonito_sha = "shaea43ca2333f91fa78a823f640ba158e4268f1f98"
-        common_sha = "shad28e55140f75a68f59bbecc74e880aeab16ab158"
+        common_sha = "shaf15f9d80aba72c20e3e71f84869619873a56b8af"
     }
 }
 

diff --git a/bin/workflow_glue/__init__.py b/bin/workflow_glue/__init__.py
diff --git a/bin/workflow_glue/check_bam_headers_in_dir.py b/bin/workflow_glue/check_bam_headers_in_dir.py
diff --git a/bin/workflow_glue/check_sample_sheet.py b/bin/workflow_glue/check_sample_sheet.py
diff --git a/bin/workflow_glue/check_xam_index.py b/bin/workflow_glue/check_xam_index.py
diff --git a/bin/workflow_glue/configure_igv.py b/bin/workflow_glue/configure_igv.py
diff --git a/bin/workflow_glue/get_max_depth_locus.py b/bin/workflow_glue/get_max_depth_locus.py
diff --git a/bin/workflow_glue/reheader_samstream.py b/bin/workflow_glue/reheader_samstream.py
diff --git a/bin/workflow_glue/util.py b/bin/workflow_glue/util.py
diff --git a/lib/common.nf b/lib/common.nf
@@ -2,6 +2,8 @@ import groovy.json.JsonBuilder
 
 process getParams {
     label "wf_common"
+    publishDir "${params.out_dir}", mode: 'copy', pattern: "params.json"
+    cache false
     cpus 1
     memory "2 GB"
     output:

diff --git a/main.nf b/main.nf
@@ -24,6 +24,7 @@ process getVersions {
 
 process getParams {
     label "wf_basecalling"
+    cache false
     cpus 1
     output:
         path "params.json"