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Bioconductor Release 3 16 #47

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Nov 22, 2022
Merged

Bioconductor Release 3 16 #47

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0a76863
Update CHANGELOG.md
almahmoud Nov 7, 2022
9cfbd73
Update 3.16.0
almahmoud Nov 7, 2022
66bac08
Update base image for 3.16 release
almahmoud Nov 7, 2022
33afa33
Update devel
almahmoud Nov 7, 2022
2a6578c
Update script for 3.16
almahmoud Nov 8, 2022
5d7ad03
Update CHANGELOG.md
almahmoud Nov 9, 2022
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12 changes: 10 additions & 2 deletions anvil-rstudio-bioconductor-devel/CHANGELOG.md
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## 3.17.0 - 11/7/2022

- Update base image bioconductor/bioconductor_docker:devel
- R 4.3.0
- Bioconductor 3.17

Image URL: us.gcr.io/broad-dsp-gcr-public/anvil-rstudio-bioconductor-devel:3.17.0

## 3.16.1 - 6/06/2022

- Update base image bioconductor/bioconductor_docker:devel with python3.8-venv

- rebuild stack

Image URL: us.gcr.io/broad-dsp-gcr-public/anvil-rstudio-bioconductor:3.16.1
Image URL: us.gcr.io/broad-dsp-gcr-public/anvil-rstudio-bioconductor-devel:3.16.1

## 3.16.0 - 4/26/2022

- Bioconductor devel image i.e 3.16 , on R-4.2.0

Image URL: us.gcr.io/broad-dsp-gcr-public/anvil-rstudio-bioconductor:3.16.0
Image URL: us.gcr.io/broad-dsp-gcr-public/anvil-rstudio-bioconductor-devel:3.16.0

## 3.15.1 - 2/2/2022

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1 change: 1 addition & 0 deletions anvil-rstudio-bioconductor-devel/README.md
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| Development Image Release | Docker Image URL |Date Updated | Questions or Feedback |
| --- | --- | --- | --- |
| 3.17.0 | us.gcr.io/broad-dsp-gcr-public/anvil-rstudio-bioconductor-devel:3.17.0 | 11/07/2022 | Contact the [Bioconductor Team](mailto:[email protected]) |
| 3.16.1 | us.gcr.io/broad-dsp-gcr-public/anvil-rstudio-bioconductor-devel:3.16.1 | 6/06/2022 | Contact the [Bioconductor Team](mailto:[email protected]) |
| 3.16.0 | us.gcr.io/broad-dsp-gcr-public/anvil-rstudio-bioconductor-devel:3.16.0 | 05/11/2022 | Contact the [Bioconductor Team](mailto:[email protected]) |
| 3.15.1 | us.gcr.io/broad-dsp-gcr-public/anvil-rstudio-bioconductor-devel:3.15.1 | 2/2/2022 | Contact the [Bioconductor Team](mailto:[email protected]) |
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2 changes: 1 addition & 1 deletion anvil-rstudio-bioconductor-devel/VERSION
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3.16.1
3.17.0
7 changes: 7 additions & 0 deletions anvil-rstudio-bioconductor/CHANGELOG.md
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## 3.16.0 - 11/7/2022

- Update base bioconductor/bioconductor_docker:RELEASE_3_16 image with Bioconductor 3.16 release
- R 4.2.2

Image URL: us.gcr.io/broad-dsp-gcr-public/anvil-rstudio-bioconductor:3.16.0

## 3.15.3 - 9/13/2022

- Update base bioconductor/bioconductor_docker:RELEASE_3_15 image with R 4.2.1 and including Quarto
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9 changes: 4 additions & 5 deletions anvil-rstudio-bioconductor/Dockerfile
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FROM bioconductor/bioconductor_docker:RELEASE_3_15
FROM bioconductor/bioconductor_docker:RELEASE_3_16

RUN apt-get update && apt-get install -yq --no-install-recommends \
gnupg \
Expand All @@ -23,13 +23,12 @@ RUN R -e "BiocManager::install(c('AnVIL', 'DataBiosphere/Ronaldo', 'shiny', 'big

ENV RSTUDIO_PORT 8001
ENV RSTUDIO_HOME /etc/rstudio
ENV RSTUDIO_USERSETTING /home/rstudio/.rstudio/monitored/user-settings/user-settings
ENV RSTUDIO_USERSETTING /home/rstudio/.config/rstudio/rstudio-prefs.json

ADD rserver.conf $RSTUDIO_HOME/rserver.conf

RUN sed -i 's/alwaysSaveHistory="0"/alwaysSaveHistory="1"/g' $RSTUDIO_USERSETTING \
&& sed -i 's/loadRData="0"/loadRData="1"/g' $RSTUDIO_USERSETTING \
&& sed -i 's/saveAction="0"/saveAction="1"/g' $RSTUDIO_USERSETTING
RUN sed -i 's/"always_save_history": false/"always_save_history": true/g' $RSTUDIO_USERSETTING \
&& sed -i 's/"save_workspace": "never"/"save_workspace": "always"/g' $RSTUDIO_USERSETTING

EXPOSE $RSTUDIO_PORT

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1 change: 1 addition & 0 deletions anvil-rstudio-bioconductor/README.md
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| Latest Image Release | Docker Image URL |Date Updated | Questions or Feedback |
| --- | --- | --- | ---
| 3.16.0 | us.gcr.io/broad-dsp-gcr-public/anvil-rstudio-bioconductor:3.16.0 | 11/7/2022 | Contact the [Bioconductor Team](mailto:[email protected]) |
| 3.15.3 | us.gcr.io/broad-dsp-gcr-public/anvil-rstudio-bioconductor:3.15.3 | 9/13/2022 | Contact the [Bioconductor Team](mailto:[email protected]) |
| 3.15.2 | us.gcr.io/broad-dsp-gcr-public/anvil-rstudio-bioconductor:3.15.2 | 6/06/2022 | Contact the [Bioconductor Team](mailto:[email protected]) |
| 3.15.1 | us.gcr.io/broad-dsp-gcr-public/anvil-rstudio-bioconductor:3.15.2 | 5/02/2022 | Contact the [Bioconductor Team](mailto:[email protected]) |
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2 changes: 1 addition & 1 deletion anvil-rstudio-bioconductor/VERSION
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3.15.3
3.16.0