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CI/DEP: update recipe and add quast #20

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Jun 17, 2022
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CI/DEP: update recipe and add quast #20

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3 changes: 1 addition & 2 deletions Makefile
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Original file line number Diff line number Diff line change
Expand Up @@ -16,11 +16,10 @@ test-cov: all
coverage xml

install: all
pip install git+https://github.com/ablab/quast.git@de7e1f4891a3487f3c0df6ae27cbfba38734d686
$(PYTHON) setup.py install

dev: all
pip install git+https://github.com/ablab/quast.git@de7e1f4891a3487f3c0df6ae27cbfba38734d686 coverage
pip install coverage
pip install -e .

clean: distclean
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2 changes: 0 additions & 2 deletions ci/recipe/conda_build_config.yaml
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9 changes: 4 additions & 5 deletions ci/recipe/meta.yaml
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Original file line number Diff line number Diff line change
@@ -1,6 +1,5 @@
{% set data = load_setup_py_data() %}
{% set version = data.get('version') or 'placehold' %}
{% set release = '.'.join(version.split('.')[:2]) %}

package:
name: q2-assembly
Expand All @@ -18,15 +17,15 @@ requirements:
- setuptools

run:
# TODO: add quast here once it works on python 3.8
- quast
- beautifulsoup4
- biopython <=1.78
- bowtie2 ==2.4.4
- insilicoseq
- megahit ==1.2.9
- qiime2 {{ release }}.*
- q2-types-genomics {{ release }}.*
- q2templates {{ release }}.*
- qiime2 {{ qiime2_epoch }}.*
- q2-types-genomics {{ qiime2_epoch }}.*
- q2templates {{ qiime2_epoch }}.*
- samtools
- spades ==3.15.2

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