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wurmlab / oswitch

Provides access to complex Bioinformatics software (even BioLinux!) in just one command.
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Error: image genomics/1:latest not found #32

Closed mictadlo closed 9 years ago

mictadlo commented 9 years ago

Hello, I am not able anymore to use biolinux, because I got (Error: image genomics/1:latest not found):

$ oswitch yeban/biolinux:8
Sending build context to Docker daemon 5.632 kB
Sending build context to Docker daemon 
Step 0 : FROM yeban/biolinux:8
Pulling repository yeban/biolinux
966da3e7798b: Download complete 
511136ea3c5a: Download complete 
27d47432a69b: Download complete 
5f92234dcf1e: Download complete 
51a9c7c1f8bb: Download complete 
5ba9dab47459: Download complete 
188eb3d62263: Download complete 
2175b37d5d02: Download complete 
0aa794bccd7e: Download complete 
fc3c32a1c978: Download complete 
Status: Image is up to date for yeban/biolinux:8
 ---> 966da3e7798b
Step 1 : COPY _switch /
 ---> f029f5d4ec76
Removing intermediate container 63a8590579a4
Step 2 : COPY wheel /etc/sudoers.d/
 ---> 9e1e2b7ad952
Removing intermediate container aeee952eb913
Step 3 : RUN /_switch 503 503 lorencm /home/lorencm bash 2>&1 | tee /tmp/oswitch.log
 ---> Running in 65330de02638

Switch-ifying ...

Assuming Ubuntu.
Attempting to activate universe and multiverse repositories.
Reading package lists...
Building dependency tree...
Reading state information...
software-properties-common is already the newest version.
0 upgraded, 0 newly installed, 0 to remove and 0 not upgraded.
'universe' distribution component is already enabled for all sources.
'multiverse' distribution component is already enabled for all sources.

Updating list of packages.
Ign http://dl.google.com stable InRelease
...
Get:56 http://ppa.launchpad.net trusty/main i386 Packages [20.6 kB]
Fetched 5832 kB in 21s (270 kB/s)
Reading package lists...
W: Size of file /var/lib/apt/lists/dl.google.com_linux_chrome_deb_dists_stable_main_binary-amd64_Packages.gz is not what the server reported 966 974
W: Size of file /var/lib/apt/lists/dl.google.com_linux_chrome_deb_dists_stable_main_binary-i386_Packages.gz is not what the server reported 960 970
W: Size of file /var/lib/apt/lists/dl.google.com_linux_talkplugin_deb_dists_stable_main_binary-amd64_Packages.gz is not what the server reported 659 671
W: Size of file /var/lib/apt/lists/dl.google.com_linux_talkplugin_deb_dists_stable_main_binary-i386_Packages.gz is not what the server reported 661 669
W: Size of file /var/lib/apt/lists/nebc.nerc.ac.uk_bio-linux_dists_unstable_bio-linux_binary-amd64_Packages.gz is not what the server reported 45901 46156
W: Size of file /var/lib/apt/lists/nebc.nerc.ac.uk_bio-linux_dists_unstable_bio-linux_binary-i386_Packages.gz is not what the server reported 34821 35062

Installing utilities.
Reading package lists...
Building dependency tree...
Reading state information...
less is already the newest version.
The following packages will be upgraded:
  sudo
1 upgraded, 0 newly installed, 0 to remove and 564 not upgraded.
Need to get 343 kB of archives.
After this operation, 20.5 kB disk space will be freed.
Get:1 http://archive.ubuntu.com/ubuntu/ trusty-updates/main sudo amd64 1.8.9p5-1ubuntu1.1 [343 kB]
Fetched 343 kB in 4s (76.8 kB/s)
(Reading database ... 236328 files and directories currently installed.)
Preparing to unpack .../sudo_1.8.9p5-1ubuntu1.1_amd64.deb ...
invoke-rc.d: policy-rc.d denied execution of stop.
Unpacking sudo (1.8.9p5-1ubuntu1.1) over (1.8.9p5-1ubuntu1) ...
Processing triggers for man-db (2.6.7.1-1ubuntu1) ...
Processing triggers for ureadahead (0.100.0-16) ...
Setting up sudo (1.8.9p5-1ubuntu1.1) ...

Setting up locale.
Reading package lists...
Building dependency tree...
Reading state information...
locales is already the newest version.
0 upgraded, 0 newly installed, 0 to remove and 564 not upgraded.
Generating locales...
  en_US.UTF-8... done
Generation complete.

Installing bash as requested.
Reading package lists...
Building dependency tree...
Reading state information...
bash is already the newest version.
0 upgraded, 0 newly installed, 0 to remove and 564 not upgraded.

Creating user lorencm with uid 503 ...
Done.
Your home directory is .
You can use sudo.
passwd: password expiry information changed.
 ---> ca0c85794cd6
Removing intermediate container 65330de02638
Step 4 : ENV LC_ALL en_US.UTF-8
 ---> Running in af222576c232
 ---> 80d01b4a4c7f
Removing intermediate container af222576c232
Step 5 : USER lorencm
 ---> Running in b33cfefcf069
 ---> 31147cb4a38a
Removing intermediate container b33cfefcf069
Step 6 : ENTRYPOINT bash -c
 ---> Running in 300fc7439a27
 ---> 47aba74b805f
Removing intermediate container 300fc7439a27
Successfully built 47aba74b805f
Unable to find image 'genomics/1:latest' locally
Pulling repository genomics/1
Error: image genomics/1:latest not found

What did I do wrong?

Mic

mictadlo commented 9 years ago

It is working with

 docker run -it yeban/biolinux:8
yeban commented 9 years ago

This is strange. Did you try editing (or accidentally modified) the dockerfile created by oswitch in ~/.oswitch?

yeban commented 9 years ago

Does it work if you delete oswitch's yeban/biolinux:8 image (should be named oswitch_yeban_biolinux, but double check by running docker images) and then try again with oswitch? Since yeban/biolinux:8 is already on your system (and works with docker run), it won't be pulled again.

yeban commented 9 years ago

I'm unable to reproduce it.