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sanger-tol · Feb 27, 2024 · aeeabb0 · aeeabb0
1 parent 336a6c8
commit aeeabb0
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Showing 2 changed files with 2 additions and 5 deletions.
diff --git a/.github/workflows/ci.yml b/.github/workflows/ci.yml
@@ -24,7 +24,7 @@ jobs:
     strategy:
       matrix:
         NXF_VER:
-          - "22.10.1"
+          - "23.04.0"
           - "latest-everything"
     steps:
       - name: Check out pipeline code
@@ -82,7 +82,7 @@ jobs:
       - name: Download the vecscreen test data
         run: |
           mkdir vecscreen
-          curl -L https://ftp.ncbi.nlm.nih.gov/blast/db/v4/16SMicrobial_v4.tar.gz | tar -C vecscreen -xzf -
+          wget -c https://tolit.cog.sanger.ac.uk/test-data/resources/vecscreen/GCA_900155405.1_PRJEB18760_genomic.fna -O vecscreen/GCA_900155405.1_PRJEB18760_genomic.fna
 
       - name: Run pipeline with test data
         # TODO nf-core: You can customise CI pipeline run tests as required

diff --git a/modules/local/kmer_count_dim_reduction_combine_csv.nf b/modules/local/kmer_count_dim_reduction_combine_csv.nf
@@ -1,5 +1,4 @@
 process KMER_COUNT_DIM_REDUCTION_COMBINE_CSV {
-
     tag "$meta.id"
     label 'process_low'
 
@@ -20,12 +19,10 @@ process KMER_COUNT_DIM_REDUCTION_COMBINE_CSV {
 
     script:
     def prefix = args.ext.prefix ?: "${meta.id}"
-
     """
     kmer_count_dim_reduction_combine_csv.py \\
         -o ${prefix}_kmers_dim_reduction_embeddings_combined.csv \\
         -i $input_files
-        
 
     cat <<-END_VERSIONS > versions.yml
     "${task.process}":