Merge pull request #84 from nf-core/wake_me_up_when_september_ends

Wake me up when september ends

.github/workflows/ci.yml

@@ -55,10 +55,10 @@ jobs:
         # Remember that you can parallelise this by using strategy.matrix
         # We also test basic visualization and reporting options here
         run: |
-          nextflow run ${GITHUB_WORKSPACE} -profile test,docker
-          nextflow run ${GITHUB_WORKSPACE} -profile test,docker --no_viz --no_layout
-          nextflow run ${GITHUB_WORKSPACE} -profile test,docker --smoothxg consensus_spec 10,100,1000
-          nextflow run ${GITHUB_WORKSPACE} -profile test,docker --vcf_spec "gi|568815561:#,gi|568815567:#"
-          nextflow run ${GITHUB_WORKSPACE} -profile test,docker --smoothxg_write_maf
-          nextflow run ${GITHUB_WORKSPACE} -profile test,docker --wfmash_chunks 2
-          nextflow run ${GITHUB_WORKSPACE} -profile test,docker --wfmash_only
+          nextflow run ${GITHUB_WORKSPACE} -profile test,docker --n_mappings 11
+          nextflow run ${GITHUB_WORKSPACE} -profile test,docker --n_mappings 11 --no_viz --no_layout
+          nextflow run ${GITHUB_WORKSPACE} -profile test,docker --n_mappings 11 --smoothxg consensus_spec 10,100,1000
+          nextflow run ${GITHUB_WORKSPACE} -profile test,docker --n_mappings 11 --vcf_spec "gi|568815561:#,gi|568815567:#"
+          nextflow run ${GITHUB_WORKSPACE} -profile test,docker --n_mappings 11 --smoothxg_write_maf
+          nextflow run ${GITHUB_WORKSPACE} -profile test,docker --n_mappings 11 --wfmash_chunks 2
+          nextflow run ${GITHUB_WORKSPACE} -profile test,docker --n_mappings 11 --wfmash_only

Dockerfile

@@ -1,4 +1,4 @@
-FROM ghcr.io/pangenome/pggb:20211103204137531f85
+FROM ghcr.io/pangenome/pggb:20220823114803a8b1ea
 LABEL authors="Simon Heumos, Michael Heuer, Lukas Heumos, Erik Garrison, Andrea Guarracino" \
       description="Docker image containing all software requirements for the nf-core/pangenome pipeline"