Skip to content
New issue

Have a question about this project? Sign up for a free GitHub account to open an issue and contact its maintainers and the community.

Sign up for GitHub

By clicking “Sign up for GitHub”, you agree to our terms of service and privacy statement. We’ll occasionally send you account related emails.

Already on GitHub? Sign in to your account

Jump to bottom

feat: support jobs without rights field #2

Merged
merged 4 commits into from
Jun 12, 2024
Merged

feat: support jobs without rights field #2

Show file tree
Hide file tree
Changes from all commits
Commits
Show all changes
4 commits
Select commit Hold shift + click to select a range
0973fcd
feat: support jobs without `rights` field
igboyes Jun 12, 2024
b4ad8e0
fix: try to fix _CountedFileLock error
igboyes Jun 12, 2024
680bc13
ci: try to fix failing build
igboyes Jun 12, 2024
af7e500
ci: fix build issue
igboyes Jun 12, 2024
File filter

Filter by extension

Filter by extension
Conversations
Failed to load comments.
Loading
Jump to
Jump to file
Failed to load files.
Loading
Diff view
Diff view
8 changes: 4 additions & 4 deletions Dockerfile
View file
Open in desktop
Original file line number Diff line number Diff line change
Expand Up @@ -26,7 +26,7 @@ RUN ./configure --prefix /build/samtools
RUN make
RUN make install

FROM python:3.10-bookworm as rbuild
FROM python:3.12.3-bookworm as rbuild
WORKDIR /build
RUN apt-get update && apt-get install -y libdeflate0 r-base r-cran-littler
RUN R -e "install.packages('BiocManager')"
Expand All @@ -36,15 +36,15 @@ RUN R -e "install.packages(c('data.table', 'dplyr', 'mltools', 'randomForest', '
COPY ./iimi ./iimi
RUN R -e "install.packages('iimi', repos = NULL, type = 'source')"

FROM python:3.10-bookworm as base
FROM python:3.12.3-bookworm as base
WORKDIR /app
RUN apt-get update && apt-get install -y libdeflate0 r-base r-cran-littler
COPY --from=prep /build/bowtie2/* /usr/local/bin/
COPY --from=prep /build/pigz-2.8/pigz /usr/local/bin/pigz
COPY --from=prep /build/samtools/bin/samtools /usr/local/bin/samtools
COPY --from=prep /build/skewer /usr/local/bin/
RUN curl -sSL https://install.python-poetry.org | python - --version 1.7.1
ENV PATH="/root/.local/bin:${PATH}"
RUN curl -sSL https://install.python-poetry.org | python3 - --version 1.8.3
ENV PATH="/root/.local/bin:$PATH"
COPY poetry.lock pyproject.toml ./
RUN poetry install --without dev --no-root
COPY --from=rbuild /usr/local/lib/R/site-library /usr/local/lib/R/site-library
Expand Down
Loading
Loading