From 8609f8527a75bc0d2fcc744225a69b11db40b4ad Mon Sep 17 00:00:00 2001 From: Nikhil Kumar Date: Wed, 26 Aug 2026 17:13:23 -0400 Subject: [PATCH 1/2] Add PATH environment variable for phylowgs --- containers/phylowgs/v1.5.1-msk/Dockerfile | 2 ++ 1 file changed, 2 insertions(+) diff --git a/containers/phylowgs/v1.5.1-msk/Dockerfile b/containers/phylowgs/v1.5.1-msk/Dockerfile index 5a9987c..5bbae8d 100644 --- a/containers/phylowgs/v1.5.1-msk/Dockerfile +++ b/containers/phylowgs/v1.5.1-msk/Dockerfile @@ -27,8 +27,10 @@ RUN apt-get update -y \ && pip2 install --no-cache-dir -r /tmp/phylowgs/requirements.txt \ && cp -r /tmp/phylowgs/ /usr/bin \ && g++ -I/usr/bin/phylowgs -o /usr/bin/phylowgs/mh.o -O3 /usr/bin/phylowgs/mh.cpp /usr/bin/phylowgs/util.cpp -I/usr/include -L/usr/lib/aarch64-linux-gnu -lgsl -lgslcblas -lm \ + && chmod -R +x /usr/bin/phylowgs # Clean up && rm -r /tmp/phylowgs \ && apt-get clean \ && apt-get purge \ && rm -rf /var/lib/apt/lists/* /tmp/* /var/tmp/* +ENV PATH=/usr/bin/phylowgs/parser/:/usr/bin/phylowgs:$PATH From fa2d0934d80013d5ad0b0ac8ce5126715e02c6a7 Mon Sep 17 00:00:00 2001 From: Nikhil Kumar Date: Wed, 26 Aug 2026 17:16:50 -0400 Subject: [PATCH 2/2] Fix Dockerfile syntax --- containers/phylowgs/v1.5.1-msk/Dockerfile | 2 +- 1 file changed, 1 insertion(+), 1 deletion(-) diff --git a/containers/phylowgs/v1.5.1-msk/Dockerfile b/containers/phylowgs/v1.5.1-msk/Dockerfile index 5bbae8d..b5d099c 100644 --- a/containers/phylowgs/v1.5.1-msk/Dockerfile +++ b/containers/phylowgs/v1.5.1-msk/Dockerfile @@ -27,7 +27,7 @@ RUN apt-get update -y \ && pip2 install --no-cache-dir -r /tmp/phylowgs/requirements.txt \ && cp -r /tmp/phylowgs/ /usr/bin \ && g++ -I/usr/bin/phylowgs -o /usr/bin/phylowgs/mh.o -O3 /usr/bin/phylowgs/mh.cpp /usr/bin/phylowgs/util.cpp -I/usr/include -L/usr/lib/aarch64-linux-gnu -lgsl -lgslcblas -lm \ - && chmod -R +x /usr/bin/phylowgs + && chmod -R +x /usr/bin/phylowgs \ # Clean up && rm -r /tmp/phylowgs \ && apt-get clean \