Bump utils to v0.4.2 (#185)

* bump v0.4.1 -> v0.4.2 * remove whitespace * fix tag
PGScatalog · Sep 28, 2023 · 8924d24 · 8924d24
1 parent 43ac493
commit 8924d24
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Showing 6 changed files with 13 additions and 13 deletions.
diff --git a/conf/modules.config b/conf/modules.config
@@ -36,10 +36,10 @@ process {
     // container configuration    
     withLabel: pgscatalog_utils {
         ext.conda = "$projectDir/environments/pgscatalog_utils/environment.yml"
-        ext.docker = 'dockerhub.ebi.ac.uk/gdp-public/pgscatalog_utils/pgscatalog_utils'
-        ext.singularity = 'oras://dockerhub.ebi.ac.uk/gdp-public/pgscatalog_utils/singularity/pgscatalog_utils'
-        ext.docker_version = ':dev'
-        ext.singularity_version = ':dev'
+        ext.docker = 'ghcr.io/pgscatalog/pgscatalog_utils'
+        ext.singularity = 'oras://ghcr.io/pgscatalog/pgscatalog_utils'
+        ext.docker_version = ':v0.4.2'
+        ext.singularity_version = ':v0.4.2-singularity'
     }
 
     withLabel: plink2 {

diff --git a/environments/pgscatalog_utils/environment.yml b/environments/pgscatalog_utils/environment.yml
@@ -3,4 +3,4 @@ dependencies:
 - python=3.10
 - pip
 - pip:
-    - pgscatalog_utils==0.4.1
+    - pgscatalog_utils==0.4.2
diff --git a/tests/modules/combine/test.yml b/tests/modules/combine/test.yml
@@ -15,6 +15,6 @@
         - "effect_type"
     - path: output/combine/versions.yml
       contains:
-        - "pgscatalog_utils: 0.4.1"
+        - "pgscatalog_utils: 0.4.2"
 
 
diff --git a/tests/modules/download/test.yml b/tests/modules/download/test.yml
@@ -8,7 +8,7 @@
     - path: output/download/PGS000001_hmPOS_GRCh37.txt.gz
     - path: output/download/versions.yml
       contains:
-        - "pgscatalog_utils: 0.4.1"
+        - "pgscatalog_utils: 0.4.2"
 
 - name: pgscatalog test --efo_trait --pgp_id and --pgs_id
   command: nextflow run ./tests/modules/download -entry testmultipleaccessions -c ./tests/config/nextflow.config
@@ -24,7 +24,7 @@
     - path: output/download/PGS002054_hmPOS_GRCh37.txt.gz
     - path: output/download/versions.yml
       contains:
-        - "pgscatalog_utils: 0.4.1"
+        - "pgscatalog_utils: 0.4.2"
 
 - name: pgscatalog test bad accession
   command: nextflow run ./tests/modules/download -entry testbadaccession -c ./tests/config/nextflow.config
@@ -44,4 +44,4 @@
     - path: output/download/PGS000001_hmPOS_GRCh38.txt.gz
     - path: output/download/versions.yml
       contains:
-        - "pgscatalog_utils: 0.4.1"
+        - "pgscatalog_utils: 0.4.2"
diff --git a/tests/modules/match/test.yml b/tests/modules/match/test.yml
@@ -8,7 +8,7 @@
   files:
     - path: output/test/match/versions.yml
       contains:
-        - "pgscatalog_utils: 0.4.1"
+        - "pgscatalog_utils: 0.4.2"
 
 - name: test match combine module
   command: nextflow run ./tests/modules/match -entry testmatchcombine -c ./tests/config/nextflow.config
@@ -20,7 +20,7 @@
   files:
     - path: output/combine/versions.yml
       contains:
-        - "pgscatalog_utils: 0.4.1"
+        - "pgscatalog_utils: 0.4.2"
     - path: output/combine/scorefiles.txt.gz
       contains:
         - "effect_allele"

diff --git a/tests/subworkflows/test_liftover_run.yml b/tests/subworkflows/test_liftover_run.yml
@@ -9,7 +9,7 @@
     - path: output/combine/scorefiles.txt.gz
     - path: output/combine/versions.yml      
       contains:
-        - "pgscatalog_utils: 0.4.1"
+        - "pgscatalog_utils: 0.4.2"
 
 - name: test input check subworkflow with liftover 37to38
   command: nextflow run main.nf --only_input --pgs_id PGS001229 --liftover --target_build GRCh38 -c ./tests/config/nextflow.config --hg19_chain https://hgdownload.cse.ucsc.edu/goldenpath/hg19/liftOver/hg19ToHg38.over.chain.gz --hg38_chain https://hgdownload.soe.ucsc.edu/goldenPath/hg38/liftOver/hg38ToHg19.over.chain.gz
@@ -22,4 +22,4 @@
     - path: output/combine/scorefiles.txt.gz
     - path: output/combine/versions.yml
       contains:
-        - "pgscatalog_utils: 0.4.1"
+        - "pgscatalog_utils: 0.4.2"