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Use olgabot/dayhoff branch to build sourmash #26

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Jul 5, 2019
Merged

Use olgabot/dayhoff branch to build sourmash #26

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7f895ad
Use Olga's dayhoff branch on sourmash to build
olgabot Jul 5, 2019
bf45db7
Add changelog
olgabot Jul 5, 2019
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6 changes: 5 additions & 1 deletion CHANGELOG.md
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@@ -1,4 +1,8 @@
# nf-core/nf-kmer-similarity: Changelog

## v1.0dev - 6 March 2019
## v1.1dev

* Add option to use Dayhoff encoding for sourmash

## v1.0 - 6 March 2019
Initial release of nf-core/nf-kmer-similarity, created with the [nf-core](http://nf-co.re/) template.
5 changes: 3 additions & 2 deletions Dockerfile
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Expand Up @@ -36,13 +36,14 @@ RUN cd /home && \
RUN trim-low-abund.py --help
RUN trim-low-abund.py --version

# RUN conda install --channel bioconda --yes sourmash

# Required for multiprocessing of 10x bam file
# RUN pip install pathos bamnostic

# ENV SOURMASH_VERSION master
ENV SOURMASH_VERSION 'olgabot/dayhoff'
RUN cd /home && \
git clone https://github.com/dib-lab/sourmash.git && \
git clone --branch $SOURMASH_VERSION https://github.com/czbiohub/sourmash.git && \
cd sourmash && \
python3 setup.py install

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