From e505d5dbf4a205f07220ed5e0d4556cc7ce79491 Mon Sep 17 00:00:00 2001 From: Sara JC Gosline Date: Thu, 20 Jun 2024 08:08:35 -0700 Subject: [PATCH] updated for numpy update --- build/beatAML/requirements.txt | 2 +- build/broad_sanger/requirements.txt | 2 +- build/docker/Dockerfile.mpnst | 3 +-- build/mpnst/build_drugs.sh | 2 +- build/mpnst/requirements.txt | 2 +- 5 files changed, 5 insertions(+), 6 deletions(-) diff --git a/build/beatAML/requirements.txt b/build/beatAML/requirements.txt index 9851b4ad..3ff20f03 100755 --- a/build/beatAML/requirements.txt +++ b/build/beatAML/requirements.txt @@ -3,7 +3,7 @@ wget==3.2 requests synapseclient argparse -numpy==1.26.0 +numpy==1.26.4 openpyxl matplotlib scikit-learn diff --git a/build/broad_sanger/requirements.txt b/build/broad_sanger/requirements.txt index bf1dfe43..d28b9866 100755 --- a/build/broad_sanger/requirements.txt +++ b/build/broad_sanger/requirements.txt @@ -1,6 +1,6 @@ pandas matplotlib -numpy==1.26.0 +numpy==1.26.4 argparse tqdm scikit-learn diff --git a/build/docker/Dockerfile.mpnst b/build/docker/Dockerfile.mpnst index 89f128e5..2461abe8 100755 --- a/build/docker/Dockerfile.mpnst +++ b/build/docker/Dockerfile.mpnst @@ -12,9 +12,8 @@ WORKDIR /app ADD build/mpnst/requirements.txt . ADD build/mpnst/requirements.r . -ADD build/mpnst/*.R ./ +ADD build/mpnst/* ./ ADD build/utils/* ./ -ADD build/mpnst/*sh ./ # installing python libraries RUN /opt/venv/bin/pip3 install -r requirements.txt diff --git a/build/mpnst/build_drugs.sh b/build/mpnst/build_drugs.sh index 8e6ac887..8512222f 100644 --- a/build/mpnst/build_drugs.sh +++ b/build/mpnst/build_drugs.sh @@ -1,2 +1,2 @@ Rscript 02_get_drug_data.R $SYNAPSE_AUTH_TOKEN $1 /tmp/mpnst_drugs.tsv -/opt/venv/bin/python build_drug_desc.py --drugtable /tmp/mpnst_drugs.tsv --desctable /tmp/mpnst_drug_descriptors.tsv.gz +/opt/venv/bin/python3 build_drug_desc.py --drugtable /tmp/mpnst_drugs.tsv --desctable /tmp/mpnst_drug_descriptors.tsv.gz diff --git a/build/mpnst/requirements.txt b/build/mpnst/requirements.txt index c9a8e6cb..99f3c960 100755 --- a/build/mpnst/requirements.txt +++ b/build/mpnst/requirements.txt @@ -1,7 +1,7 @@ pyarrow pandas matplotlib -numpy==1.26.0 +numpy==1.26.4 argparse tqdm scikit-learn