Fixing bug in docker file and in container selection of subworkflow

guigolab · Jan 16, 2023 · afe6f2a · afe6f2a
1 parent 484f579
commit afe6f2a
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Showing 3 changed files with 1 addition and 7 deletions.
diff --git a/docker/geneidx/Dockerfile b/docker/geneidx/Dockerfile
@@ -44,8 +44,3 @@ RUN chmod +x /usr/local/bin/FastaToTbl
 
 RUN chmod +x /usr/local/bin/sgp_getHSPSR.pl
 
-
-ENTRYPOINT [ "/usr/local/bin/blast2gff" ]
-ENTRYPOINT [ "/usr/local/bin/FastaToTbl" ]
-ENTRYPOINT [ "/usr/local/bin/geneid" ]
-ENTRYPOINT [ "/usr/local/bin/sgp_getHSPSR.pl" ]
diff --git a/nextflow.config b/nextflow.config
@@ -13,7 +13,6 @@ includeConfig 'conf/base.config'
 
 process {
     // indicates the default container to be used if not defined within the modules
-    // container = 'ferriolcalvet/geneid-fetching:latest'
     container = 'ferriolcalvet/geneidx:latest'
 
     // custom container options in case you use docker for mapping the users and avoid docker writing files as root

diff --git a/subworkflows/tools.nf b/subworkflows/tools.nf
@@ -64,7 +64,7 @@ process fix_chr_names {
 process Index_i {
 
     // indicates to use as a container the value indicated in the parameter
-    container "ferriolcalvet/geneid-fetching"
+    container "ferriolcalvet/geneidx"
 
     // indicates to use as a label the value indicated in the parameter
     label (params.LABEL)