Fix a join bug (#6899)

* Fix a join bug * Exclude Conda from tests
nf-core · Oct 29, 2024 · 06fa121 · 06fa121
1 parent e01435f
commit 06fa121
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diff --git a/.github/workflows/test.yml b/.github/workflows/test.yml
@@ -654,6 +654,8 @@ jobs:
             path: subworkflows/nf-core/fastq_align_bamcmp_bwa
           - profile: conda
             path: subworkflows/nf-core/fastq_align_bwa
+          - profile: conda
+            path: subworkflows/nf-core/fasta_newick_epang_gappa
     env:
       NXF_ANSI_LOG: false
       NFTEST_VER: "0.9.0"

diff --git a/subworkflows/nf-core/fasta_newick_epang_gappa/main.nf b/subworkflows/nf-core/fasta_newick_epang_gappa/main.nf
@@ -139,7 +139,7 @@ workflow FASTA_NEWICK_EPANG_GAPPA {
     GAPPA_ASSIGN (
         EPANG_PLACE.out.jplace
             .map { [ [ id:it[0].id ], it[1] ] }
-            .join( ch_pp_data.map { [ it.meta, it.data.taxonomy ] } )
+            .join( ch_pp_data.map { [ [ id: it.meta.id ], it.data.taxonomy ] } )
     )
     ch_versions = ch_versions.mix(GAPPA_ASSIGN.out.versions)
 

diff --git a/subworkflows/nf-core/fasta_newick_epang_gappa/tests/main.nf.test b/subworkflows/nf-core/fasta_newick_epang_gappa/tests/main.nf.test
@@ -32,7 +32,7 @@ nextflow_workflow {
                 """
                 input[0] = Channel.of(
                     [
-                        meta: [ id: "hmmer" ],
+                        meta: [ id: "hmmer", min_bitscore: 4 ],
                         data: [
                             alignmethod:  'hmmer',
                             queryseqfile: file("https://github.com/nf-core/test-datasets/raw/phyloplace/testdata/PF14720_3_sequences.faa", checkIfExists: true),