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planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 7d54176ff26ed5f4411edb0582a3704dd90253c0
author davidecangelosi
date Tue, 07 May 2019 06:05:32 -0400
parents ecd0a79e8130
children 11393eb1c557
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ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
parents:
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1 # Galaxy - PIPE_T
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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2 #
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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3 # VERSION 0.2
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
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ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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5 FROM bgruening/galaxy-stable:latest
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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7 MAINTAINER D. CANGELOSI, davidecangelosi@gaslini.org
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
parents:
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ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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9 ENV GALAXY_CONFIG_BRAND="Galaxy PIPE-T"
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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10 ENV ENABLE_TTS_INSTALL True
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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12 RUN apt-get -y update
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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13 RUN apt-get install -y libxml2-dev libcurl4-openssl-dev curl libcairo2-dev
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
parents:
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15 #Workaround for ubuntu
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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16 #RUN cp /etc/ssl/private/ssl-cert-snakeoil.key /etc/
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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17 #RUN chown root:ssl-cert /etc/ssl-cert-snakeoil.key
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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18 #RUN sed -i -e "s/\/ssl\/private//g" /etc/postgresql/9.3/main/postgresql.conf
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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20 #install pipe_t from toolshed
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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21 ADD tools.yml $GALAXY_ROOT/tools.yaml
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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22 RUN install-tools $GALAXY_ROOT/tools.yaml && \
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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23 /tool_deps/_conda/bin/conda clean --all --yes
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
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ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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25 #RUN chown galaxy:galaxy /usr/local/lib/R/site-library
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
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ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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27 # Mark folders as imported from the host.
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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28 #VOLUME ["/export/", "/data/", "/var/lib/docker"]
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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30 # Expose port 80 (webserver), 21 (FTP server), 8800 (Proxy)
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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31 EXPOSE :80
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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32 EXPOSE :21
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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33 EXPOSE :8800
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
parents:
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35 # Autostart script that is invoked during container start
ecd0a79e8130 planemo upload for repository https://github.com/igg-molecular-biology-lab/pipe-t.git commit 065f5723959c01b6afec74dad189608477e0ac18
davidecangelosi
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36 CMD ["/usr/bin/startup"]