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🐎 Samtools base #300

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Merged
migbro merged 4 commits into from
Mar 24, 2026
Merged

🐎 Samtools base #300

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831aa96
:construction: multi-cpu samtools
migbro Mar 23, 2026
7eb96c1
:tada: created script to autodetect cpu
migbro Mar 23, 2026
8439905
:broom: piecemeal update, base first
migbro Mar 24, 2026
128440d
update docker table (#301)
github-actions[bot] Mar 24, 2026
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1 change: 1 addition & 0 deletions README.md
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Original file line number Diff line number Diff line change
Expand Up @@ -145,6 +145,7 @@ samtools|1.3.1|docker pull pgc-images.sbgenomics.com/d3b-bixu/samtools:1.3.1
samtools|1.6|docker pull pgc-images.sbgenomics.com/d3b-bixu/samtools:1.6
samtools|1.7-11-g041220d|docker pull pgc-images.sbgenomics.com/d3b-bixu/samtools:1.7-11-g041220d
samtools|1.9|docker pull pgc-images.sbgenomics.com/d3b-bixu/samtools:1.9
samtools|base|docker pull pgc-images.sbgenomics.com/d3b-bixu/samtools:base
samtools|latest|docker pull pgc-images.sbgenomics.com/d3b-bixu/samtools:latest
sanger|caveman-pindel|docker pull pgc-images.sbgenomics.com/d3b-bixu/sanger:caveman-pindel
scdblfinder|1.8.0|docker pull pgc-images.sbgenomics.com/d3b-bixu/scdblfinder:1.8.0
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25 changes: 25 additions & 0 deletions samtools/base/Dockerfile
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@@ -0,0 +1,25 @@
ARG PLATFORM=linux/amd64
FROM --platform=${PLATFORM} ubuntu:24.04

LABEL maintainer="Miguel Brown <brownm28@chop.edu>"
LABEL description="Base software for samtools image"

ENV DEBIAN_FRONTEND=noninteractive

RUN apt update && apt install -y \
autoconf \
automake \
make \
gcc \
perl \
zlib1g-dev \
libbz2-dev \
liblzma-dev \
libcurl4-gnutls-dev \
libssl-dev \
libncurses5-dev \
libdeflate-dev \
bzip2 \
pigz \
parallel \
curl
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