The latest gmap on Conda is non-functional.

EI-CoreBioinformatics · Mar 26, 2021 · 81cab7a · 81cab7a
1 parent ba86ddb
commit 81cab7a
Show file tree

Hide file tree

Showing 2 changed files with 2 additions and 2 deletions.
diff --git a/.github/workflows/python-package.yml b/.github/workflows/python-package.yml
@@ -81,7 +81,7 @@ jobs:
     - name: Test daijin
       if: startsWith(runner.os, 'Linux')
       run: |
-        mamba install -c bioconda -c conda-forge -y bioconda::portcullis stringtie scallop gmap \
+        mamba install -c bioconda -c conda-forge -y bioconda::portcullis stringtie scallop "gmap!=2021.02.22" \
           star hisat2 prodigal blast diamond transdecoder conda-forge::gnuplot kallisto samtools gffread;
         cd sample_data; snakemake --latency-wait 60 --jobs 5 --cores 5
     - name: Test daijin mikado

diff --git a/Mikado/daijin/envs/gmap.yaml b/Mikado/daijin/envs/gmap.yaml
@@ -1,5 +1,5 @@
 channels:
   - bioconda
 dependencies:
-  - bioconda::gmap>=2019.06.10
+  - bioconda::gmap!=2021.02.22
   - bioconda::samtools>=1.9