From 5eac8283708092e4497a07c4528f547cf3c85deb Mon Sep 17 00:00:00 2001
From: Taylor Salo <salot@pennmedicine.upenn.edu>
Date: Fri, 10 Feb 2023 14:44:48 -0500
Subject: [PATCH] 0.3.x: Change permissions of miniconda folders in Dockerfile
 (#795)

---
 Dockerfile | 8 +++++---
 setup.cfg  | 1 +
 2 files changed, 6 insertions(+), 3 deletions(-)

diff --git a/Dockerfile b/Dockerfile
index c82e7580b..baa3b5c2b 100644
--- a/Dockerfile
+++ b/Dockerfile
@@ -9,8 +9,11 @@ ARG VERSION=0.0.1
 # Force static versioning within container
 RUN echo "${VERSION}" > /src/xcp_d/xcp_d/VERSION && \
     echo "include xcp_d/VERSION" >> /src/xcp_d/MANIFEST.in && \
-    pip install --no-cache-dir "/src/xcp_d[all]"
-
+    pip install --no-cache-dir "/src/xcp_d[all]" && \
+    chmod -R a+rX /usr/local/miniconda; sync && \
+    chmod +x /usr/local/miniconda/bin/*; sync && \
+    conda clean -y --all && sync && \
+    conda clean -tipsy && sync
 
 RUN find $HOME -type d -exec chmod go=u {} + && \
     find $HOME -type f -exec chmod go=u {} + && \
@@ -21,7 +24,6 @@ WORKDIR /tmp/
 
 ENTRYPOINT ["/usr/local/miniconda/bin/xcp_d"]
 
-
 ARG BUILD_DATE
 ARG VCS_REF
 ARG VERSION
diff --git a/setup.cfg b/setup.cfg
index 34ab1cc3e..0d92f1e35 100644
--- a/setup.cfg
+++ b/setup.cfg
@@ -23,6 +23,7 @@ install_requires =
     indexed_gzip ~= 1.6.4  # for loading imgs in nibabel
     jinja2 ~= 3.0.0  # for executive summary
     matplotlib ~= 3.3.4
+    networkx ~= 2.8.8  # nipype needs networkx, but 3+ isn't compatible with nipype 1.8.5
     nibabel >= 3.2.1
     nilearn ~= 0.9.2
     nipype ~= 1.8.5