fix(ci): change human reference from NC_000021.9 to BA000005.3 (#488)

IKIM-Essen · Mar 1, 2022 · 14b4be0 · 14b4be0
1 parent 9e368d5
commit 14b4be0
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Showing 2 changed files with 3 additions and 3 deletions.
diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml
@@ -122,7 +122,7 @@ jobs:
           # mkdir -p .tests/resources/minikraken-8GB
           # curl -SL https://github.com/thomasbtf/small-kraken-db/raw/master/human_k2db.tar.gz | tar zxvf - -C .tests/resources/minikraken-8GB --strip 1
           mkdir -p .tests/resources/genomes
-          curl -SL "https://www.ncbi.nlm.nih.gov/sviewer/viewer.fcgi?id=NC_000021.9&db=nuccore&report=fasta" | gzip -c > .tests/resources/genomes/human-genome.fna.gz
+          curl -SL "https://www.ncbi.nlm.nih.gov/sviewer/viewer.fcgi?id=BA000005.3&db=nuccore&report=fasta" | gzip -c > .tests/resources/genomes/human-genome.fna.gz
       - name: Simulate GISAID download
         run: |
           mkdir -p .tests/results/benchmarking/tables
@@ -300,7 +300,7 @@ jobs:
           # mkdir -p .tests/resources/minikraken-8GB
           # curl -SL https://github.com/thomasbtf/small-kraken-db/raw/master/human_k2db.tar.gz | tar zxvf - -C .tests/resources/minikraken-8GB --strip 1
           mkdir -p .tests/resources/genomes
-          curl -SL "https://www.ncbi.nlm.nih.gov/sviewer/viewer.fcgi?id=NC_000021.9&db=nuccore&report=fasta" | gzip -c > .tests/resources/genomes/human-genome.fna.gz
+          curl -SL "https://www.ncbi.nlm.nih.gov/sviewer/viewer.fcgi?id=BA000005.3&db=nuccore&report=fasta" | gzip -c > .tests/resources/genomes/human-genome.fna.gz
       - name: Simulate GISAID download
         run: |
           mkdir -p .tests/results/benchmarking/tables

diff --git a/workflow/envs/snakemake.yaml b/workflow/envs/snakemake.yaml
@@ -2,4 +2,4 @@ channels:
   - bioconda
   - conda-forge
 dependencies:
-  - snakemake =6.10
+  - snakemake =7.0