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#!/bin/sh #!/bin/sh
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
docker pull lbmc/kallistobustools:0.39.3 docker pull lbmc/kallistobustools:0.39.3
# docker build src/.docker_modules/kallistobustools/0.39.3 -t 'lbmc/kallistobustools:0.39.3' # docker build src/.docker_modules/kallistobustools/0.39.3 -t 'lbmc/kallistobustools:0.39.3'
# docker push lbmc/kallistobustools:0.39.3 # docker push lbmc/kallistobustools:0.39.3
......
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
FROM python:3.9-slim FROM python:3.9-slim
ENV KB_VERSION="0.26.0" ENV KB_VERSION="0.26.0"
......
#!/bin/sh #!/bin/sh
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
docker pull lbmc/kb:0.26.0 docker pull lbmc/kb:0.26.0
# docker build src/.docker_modules/kb/0.26.0 -t 'lbmc/kb:0.26.0' # docker build src/.docker_modules/kb/0.26.0 -t 'lbmc/kb:0.26.0'
# docker push lbmc/kb:0.26.0 # docker push lbmc/kb:0.26.0
......
#!/usr/local/bin/python #!/usr/local/bin/python
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
import os import os
import re import re
import gzip import gzip
......
#!/usr/local/bin/python #!/usr/local/bin/python
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
import os import os
import re import re
import gzip import gzip
......
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
FROM python:3.9-slim FROM python:3.9-slim
ENV KB_VERSION="0.26.3" ENV KB_VERSION="0.26.3"
......
#!/bin/sh #!/bin/sh
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
docker pull lbmc/kb:0.26.3 docker pull lbmc/kb:0.26.3
docker build src/.docker_modules/kb/0.26.3 -t 'lbmc/kb:0.26.3' docker build src/.docker_modules/kb/0.26.3 -t 'lbmc/kb:0.26.3'
docker push lbmc/kb:0.26.3 docker push lbmc/kb:0.26.3
#!/usr/local/bin/python #!/usr/local/bin/python
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
import os import os
import gffutils import gffutils
import argparse import argparse
......
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
FROM ubuntu:18.04 FROM ubuntu:18.04
MAINTAINER Laurent Modolo MAINTAINER Laurent Modolo
......
#!/bin/sh #!/bin/sh
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
docker pull lbmc/last:1060 docker pull lbmc/last:1060
# docker build src/.docker_modules/last/1060/ -t 'lbmc/last:1060' # docker build src/.docker_modules/last/1060/ -t 'lbmc/last:1060'
# docker push lbmc/last:1060 # docker push lbmc/last:1060
......
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
FROM quay.io/biocontainers/ucsc-liftover:357--1 FROM quay.io/biocontainers/ucsc-liftover:357--1
MAINTAINER Laurent Modolo MAINTAINER Laurent Modolo
#!/bin/sh #!/bin/sh
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
docker pull lbmc/liftover:357 docker pull lbmc/liftover:357
# docker build src/.docker_modules/liftover/357/ -t 'lbmc/liftover:357' # docker build src/.docker_modules/liftover/357/ -t 'lbmc/liftover:357'
# docker push lbmc/liftover:357 # docker push lbmc/liftover:357
......
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
FROM quay.io/biocontainers/macs2:2.1.2--py27r351h14c3975_1 FROM quay.io/biocontainers/macs2:2.1.2--py27r351h14c3975_1
MAINTAINER Laurent Modolo MAINTAINER Laurent Modolo
#!/bin/sh #!/bin/sh
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
docker pull lbmc/macs2:2.1.2 docker pull lbmc/macs2:2.1.2
# docker build src/.docker_modules/macs2/2.1.2 -t 'lbmc/macs2:2.1.2' # docker build src/.docker_modules/macs2/2.1.2 -t 'lbmc/macs2:2.1.2'
# docker push lbmc/macs2:2.1.2 # docker push lbmc/macs2:2.1.2
......
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
FROM python:3.9-slim FROM python:3.9-slim
MAINTAINER Laurent Modolo MAINTAINER Laurent Modolo
......
#!/bin/sh #!/bin/sh
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
docker pull lbmc/macs3:3.0.0a6 docker pull lbmc/macs3:3.0.0a6
# docker build src/.docker_modules/macs3/3.0.0a6 -t 'lbmc/macs3:3.0.0a6' # docker build src/.docker_modules/macs3/3.0.0a6 -t 'lbmc/macs3:3.0.0a6'
# docker push lbmc/macs3:3.0.0a6 # docker push lbmc/macs3:3.0.0a6
......
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
FROM quay.io/biocontainers/samtools:0.1.18--hfb9b9cc_10 AS samtools FROM quay.io/biocontainers/samtools:0.1.18--hfb9b9cc_10 AS samtools
# /usr/local/bin/samtools # /usr/local/bin/samtools
# / # ldd /usr/local/bin/samtools # / # ldd /usr/local/bin/samtools
......
#!/bin/sh #!/bin/sh
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
docker pull lbmc/minimap2:2.17 docker pull lbmc/minimap2:2.17
# docker build src/.docker_modules/minimap2/2.17 -t 'lbmc/minimap2:2.17' # docker build src/.docker_modules/minimap2/2.17 -t 'lbmc/minimap2:2.17'
# docker push lbmc/minimap2:2.17 # docker push lbmc/minimap2:2.17
......
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
FROM quay.io/biocontainers/samtools:0.1.18--hfb9b9cc_10 AS samtools FROM quay.io/biocontainers/samtools:0.1.18--hfb9b9cc_10 AS samtools
# /usr/local/bin/samtools # /usr/local/bin/samtools
# / # ldd /usr/local/bin/samtools # / # ldd /usr/local/bin/samtools
......
#!/bin/sh #!/bin/sh
# SPDX-FileCopyrightText: 2022 Laurent Modolo <laurent.modolo@ens-lyon.fr>
#
# SPDX-License-Identifier: AGPL-3.0-or-later
docker pull lbmc/minimap2:2.20 docker pull lbmc/minimap2:2.20
docker build src/.docker_modules/minimap2/2.20 -t 'lbmc/minimap2:2.20' docker build src/.docker_modules/minimap2/2.20 -t 'lbmc/minimap2:2.20'
docker push lbmc/minimap2:2.20 docker push lbmc/minimap2:2.20
......