Bug 377105 – app-admin/webapp-config-1.50.18: self.mkfile() dies while trying to delete a path to be created

• Product: Gentoo Linux
• Status: RESOLVED OBSOLETE

[Description Martin Mokrejš 2011-07-30 19:13:39 UTC]

For some reason webapp-config tries to delete a path to be created (I don't think it is wise at all, btw). Anyway, it dies because os.rmdir() fails. However, after the package installs one can see the soflink did exist. Yeah, maybe that is just os.rmdir() vs. os.unlink() issue.

The sci-biology/gbrowse is now being moved to main tree from science overlay.


>>> Completed installing gbrowse-2.39 into /var/tmp/portage/sci-biology/gbrowse-2.39/image/

ecompressdir: bzip2 -9 /usr/share/man

>>> Installing (1 of 1) sci-biology/gbrowse-2.39

 * vhosts USE flag not set - auto-installing using webapp-config
 * This is an installation
 * gbrowse-2.39 is not installed - using install mode
 * Running /usr/sbin/webapp-config -I -h localhost -u root -d /gbrowse gbrowse 2.39
*   Creating required directories
*   Linking in required files
*     This can take several minutes for larger apps
Traceback (most recent call last):
  File "/usr/sbin/webapp-config-2.7", line 44, in <module>
    main()
  File "/usr/sbin/webapp-config-2.7", line 41, in main
    config.run()
  File "/usr/lib/python2.7/site-packages/WebappConfig/config.py", line 1190, in run
    self.config.get('USER', 'pvr')).install()
  File "/usr/lib/python2.7/site-packages/WebappConfig/server.py", line 237, in install
    self.__add.mkdirs()
  File "/usr/lib/python2.7/site-packages/WebappConfig/worker.py", line 335, in mkdirs
    self.mkfile(directory + '/' + i)
  File "/usr/lib/python2.7/site-packages/WebappConfig/worker.py", line 451, in mkfile
    os.rmdir(dst_name)
OSError: [Errno 20] Not a directory: '/var/www/localhost/htdocs/gbrowse//i'

 * Running /usr/sbin/webapp-cleaner -p -C /gbrowse
 * Unused versions of /gbrowse detected.
 * To clean, run the following command:
 * emerge -Cav =gbrowse-2.39
 * Please run gbrowse_metadb_config.pl to update SQLite flatfiles of the live database.

>>> Recording sci-biology/gbrowse in "world" favorites file...

 * Messages for package sci-biology/gbrowse-2.39:

 * (info) /var/tmp/portage/sci-biology/gbrowse-2.39/work/GBrowse-2.39/INSTALL (lang: en)
 * vhosts USE flag not set - auto-installing using webapp-config
 * This is an installation
 * gbrowse-2.39 is not installed - using install mode
 * Running /usr/sbin/webapp-config -I -h localhost -u root -d /gbrowse gbrowse 2.39
>>> Auto-cleaning packages...

>>> No outdated packages were found on your system.

 * GNU info directory index is up-to-date.
vrapenec ~ # ls -la /var/www/localhost/htdocs/gbrowse/
total 192
drwxr-xr-x  9 root   root  4096 Jul 30 21:00 .
drwxr-xr-x 12 apache root  4096 Jul 30 21:00 ..
-r--r--r--  2 root   root 36588 Jul 30 21:00 annotation_help.html
drwxr-xr-x  2 root   root  4096 Jul 30 21:00 cgi-bin
drwxr-xr-x  3 root   root  4096 Jul 30 21:00 css
drwxr-xr-x  3 root   root  4096 Jul 30 21:00 etc
drwxr-xr-x  2 root   root  4096 Jul 30 21:00 example_scripts
-r--r--r--  2 root   root 69981 Jul 30 21:00 gbrowse_karyotype_help.html
-r--r--r--  2 root   root  5940 Jul 30 21:00 gbrowse_syn_help.html
-r--r--r--  2 root   root 20168 Jul 30 21:00 general_help.html
-r--r--r--  2 root   root  7865 Jul 30 21:00 general_help.html.zh
-r--r--r--  2 root   root  5289 Jul 30 21:00 gmod_cog.jpeg
lrwxrwxrwx  1 root   root    24 Jul 30 21:00 i -> /var/tmp/gbrowse2/images
drwxr-xr-x  7 root   root  4096 Jul 30 21:00 images
drwxr-xr-x  2 root   root  4096 Jul 30 21:00 js
drwxr-xr-x  7 root   root  4096 Jul 30 21:00 tutorial
vrapenec ~ #

[Comment 1 Anthony Basile 2011-08-04 02:04:41 UTC]

I'm trying to take care of webapp-config these days, but I'm strapped for time.  Do you think you can produce a patch?

[Comment 2 Devan Franchini (RETIRED) 2013-03-22 01:23:38 UTC]

(In reply to comment #1)
> I'm trying to take care of webapp-config these days, but I'm strapped for
> time.  Do you think you can produce a patch?

Bug is no longer relevant. It was either fixed on it's own, or a patch was added but this doesn't affect either GBrowse-2.48 or GBrowse-2.44-r1 on portage tree using the latest webapp-config from HEAD^.

[Comment 3 Sergey Popov 2013-03-22 06:53:43 UTC]

Closing this as OBSOLETE, feel free to reopen if this issue happens again