replace fasterq-dump with fastq-dl, formatting, and updating tests

galaxyproject · Dec 16, 2024 · bcdd728 · bcdd728
1 parent 798153a
commit bcdd728
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Showing 3 changed files with 651 additions and 216 deletions.
diff --git a/...gnify/mgnify-amplicon-pipeline-v5-complete/mgnify-amplicon-pipeline-v5-complete-tests.yml b/...gnify/mgnify-amplicon-pipeline-v5-complete/mgnify-amplicon-pipeline-v5-complete-tests.yml
@@ -28,9 +28,9 @@
     SE_MultiQC_stats:
       element_tests:
         fastqc:
-          location: https://zenodo.org/records/13710235/files/fastqc_SE.tabular
+          location: https://zenodo.org/records/14499545/files/fastqc_SE.tabular
         general_stats:
-          location: https://zenodo.org/records/13710235/files/general_stats_SE.tabular
+          location: https://zenodo.org/records/14499545/files/general_stats_SE.tabular
         sources:
           asserts:
             - that: has_text
@@ -418,4 +418,4 @@
           n: 3
         - that: has_n_lines
           n: 130
-          delta: 19
+          delta: 19