Author: osallou Date: 2013-02-18 11:11:42 +0000 (Mon, 18 Feb 2013) New Revision: 13033
Added: trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/ trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/changelog trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/control trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/patches/change_mobylehome trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/patches/defaultconfig Removed: trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/changelog trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/control trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/patches/change_mobylehome trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/patches/defaultconfig Log: [svn-buildpackage] Tagging mobyle 1.5+dfsg-1 Deleted: trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/changelog =================================================================== --- trunk/packages/mobyle/mobyle/trunk/debian/changelog 2013-02-18 10:48:51 UTC (rev 13031) +++ trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/changelog 2013-02-18 11:11:42 UTC (rev 13033) @@ -1,77 +0,0 @@ -mobyle (1.0.7+dfsg-1) unstable; urgency=low - - [ Olivier Sallou ] - * New upstream release - * debian/get-orig-source: Normalised versioning (~dfsg -> +dfsg) - - [ Andreas Tille ] - * debian/copyright: - - DEP5 - - Add Files-Excluded to document what was removed from original source - * debian/watch: Normalised versioning (~dfsg -> +dfsg) - - -- Olivier Sallou <[email protected]> Tue, 04 Sep 2012 13:27:00 +0200 - -mobyle (1.0.6~dfsg-1) unstable; urgency=low - - * New upstream release - - -- Olivier Sallou <[email protected]> Mon, 25 Jun 2012 15:55:39 +0200 - -mobyle (1.0.5~dfsg-2) unstable; urgency=low - - * Add postrm for clean purge. - - -- Olivier Sallou <[email protected]> Sun, 03 Jun 2012 13:36:48 +0200 - -mobyle (1.0.5~dfsg-1) unstable; urgency=low - - * New upstream release - * debian/patches/defaultconfig: add phylip binary path - * debian/control: remove some recommends - [ Andreas Tille ] - * debian/upstream: Added citations - - -- Olivier Sallou <[email protected]> Tue, 22 May 2012 17:53:24 +0200 - -mobyle (1.0.4~dfsg-3) unstable; urgency=low - - * Use invoke-rc.d instead of service command to restart - apache as per Debian policy (Closes: #656078) - * Remove zx compression - * Add doc-base - - -- Olivier Sallou <[email protected]> Mon, 16 Jan 2012 11:43:31 +0100 - -mobyle (1.0.4~dfsg-2) unstable; urgency=low - - * Add missing dep on python-pygraphviz for workflows - - -- Olivier Sallou <[email protected]> Tue, 13 Dec 2011 13:48:42 +0100 - -mobyle (1.0.4~dfsg-1) unstable; urgency=low - - * New upstream version. - - Possible break in previous xml program description, - see README.Debian file for more info - - -- Olivier Sallou <[email protected]> Wed, 07 Dec 2011 17:20:09 +0100 - -mobyle (1.0.3~dfsg-1) unstable; urgency=low - - * New upstream release (bug fixes) - - -- Olivier Sallou <[email protected]> Wed, 02 Nov 2011 12:08:19 +0100 - -mobyle (1.0.2~dfsg-2) unstable; urgency=low - - * debian/rules : Thanks to A. Ucko - - fix issue when building arch depandant only package (Closes: #644277) - - -- Olivier Sallou <[email protected]> Wed, 05 Oct 2011 13:35:00 +0900 - -mobyle (1.0.2~dfsg-1) unstable; urgency=low - - * Initial release (Closes: #637230) - - -- Olivier Sallou <[email protected]> Mon, 03 Oct 2011 12:56:44 +0900 Copied: trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/changelog (from rev 13032, trunk/packages/mobyle/mobyle/trunk/debian/changelog) =================================================================== --- trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/changelog (rev 0) +++ trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/changelog 2013-02-18 11:11:42 UTC (rev 13033) @@ -0,0 +1,83 @@ +mobyle (1.5+dfsg-1) UNRELEASED; urgency=low + + * New upstream release + + -- Olivier Sallou <[email protected]> Tue, 04 Sep 2012 13:38:32 +0200 + +mobyle (1.0.7+dfsg-1) unstable; urgency=low + + [ Olivier Sallou ] + * New upstream release + * debian/get-orig-source: Normalised versioning (~dfsg -> +dfsg) + + [ Andreas Tille ] + * debian/copyright: + - DEP5 + - Add Files-Excluded to document what was removed from original source + * debian/watch: Normalised versioning (~dfsg -> +dfsg) + + -- Olivier Sallou <[email protected]> Tue, 04 Sep 2012 13:27:00 +0200 + +mobyle (1.0.6~dfsg-1) unstable; urgency=low + + * New upstream release + + -- Olivier Sallou <[email protected]> Mon, 25 Jun 2012 15:55:39 +0200 + +mobyle (1.0.5~dfsg-2) unstable; urgency=low + + * Add postrm for clean purge. + + -- Olivier Sallou <[email protected]> Sun, 03 Jun 2012 13:36:48 +0200 + +mobyle (1.0.5~dfsg-1) unstable; urgency=low + + * New upstream release + * debian/patches/defaultconfig: add phylip binary path + * debian/control: remove some recommends + [ Andreas Tille ] + * debian/upstream: Added citations + + -- Olivier Sallou <[email protected]> Tue, 22 May 2012 17:53:24 +0200 + +mobyle (1.0.4~dfsg-3) unstable; urgency=low + + * Use invoke-rc.d instead of service command to restart + apache as per Debian policy (Closes: #656078) + * Remove zx compression + * Add doc-base + + -- Olivier Sallou <[email protected]> Mon, 16 Jan 2012 11:43:31 +0100 + +mobyle (1.0.4~dfsg-2) unstable; urgency=low + + * Add missing dep on python-pygraphviz for workflows + + -- Olivier Sallou <[email protected]> Tue, 13 Dec 2011 13:48:42 +0100 + +mobyle (1.0.4~dfsg-1) unstable; urgency=low + + * New upstream version. + - Possible break in previous xml program description, + see README.Debian file for more info + + -- Olivier Sallou <[email protected]> Wed, 07 Dec 2011 17:20:09 +0100 + +mobyle (1.0.3~dfsg-1) unstable; urgency=low + + * New upstream release (bug fixes) + + -- Olivier Sallou <[email protected]> Wed, 02 Nov 2011 12:08:19 +0100 + +mobyle (1.0.2~dfsg-2) unstable; urgency=low + + * debian/rules : Thanks to A. Ucko + - fix issue when building arch depandant only package (Closes: #644277) + + -- Olivier Sallou <[email protected]> Wed, 05 Oct 2011 13:35:00 +0900 + +mobyle (1.0.2~dfsg-1) unstable; urgency=low + + * Initial release (Closes: #637230) + + -- Olivier Sallou <[email protected]> Mon, 03 Oct 2011 12:56:44 +0900 Deleted: trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/control =================================================================== --- trunk/packages/mobyle/mobyle/trunk/debian/control 2013-02-18 10:48:51 UTC (rev 13031) +++ trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/control 2013-02-18 11:11:42 UTC (rev 13033) @@ -1,37 +0,0 @@ -Source: mobyle -Section: science -Priority: optional -Maintainer: Debian Med Packaging Team <[email protected]> -DM-Upload-Allowed: yes -Uploaders: Olivier Sallou <[email protected]> -Build-Depends: debhelper (>= 8.9.7), python (>= 2.5), python-simpletal (>=4.1), python-simplejson (>= 1.7.1), python-imaging (>= 1.1.5), python-lxml (>= 2.2.4) -Standards-Version: 3.9.3 -Homepage: https://projets.pasteur.fr/projects/show/mobyle -Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/mobyle/mobyle/trunk/ -Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/mobyle/mobyle/trunk/ - -Package: mobyle -Architecture: all -Depends: ${misc:Depends}, python (>= 2.5), apache2, python-simpletal (>=4.1), -# see INSTALL - python-simpletal (<< 5.0~), python-support (>= 0.90), python-pygraphviz, - python-simplejson (>= 1.7.1), python-imaging (>= 1.1.5), - python-lxml (>= 2.2.4), squizz, libjs-scriptaculous, libjs-jquery, libjs-prototype, mobyle-utils, jing, ttf-bitstream-vera -Suggests: python-openid (>= 2.2.4), python-dnspython (>= 1.5.0) -Recommends: mobyle-programs (>= 4.0) -Breaks: mobyle-programs (<< 4.0-1) -Description: Web portal that provides web forms for command-line software - Mobyle is a framework and web portal specifically aimed at the integration of - bioinformatics software and databanks. It generates a web interface from an xml - description for command-line based tools. - It can submit jobs locally or using DRM systems. - . - This package will restart Apache after enabling the ‘rewrite’ and ‘headers’ - modules. - -Package: mobyle-utils -Architecture: any -Depends: ${misc:Depends},${shlibs:Depends} -Description: binary tools used by Mobyle - Binary tools used by the Mobyle web portal to manage - jobs. Copied: trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/control (from rev 13032, trunk/packages/mobyle/mobyle/trunk/debian/control) =================================================================== --- trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/control (rev 0) +++ trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/control 2013-02-18 11:11:42 UTC (rev 13033) @@ -0,0 +1,36 @@ +Source: mobyle +Section: science +Priority: optional +Maintainer: Debian Med Packaging Team <[email protected]> +DM-Upload-Allowed: yes +Uploaders: Olivier Sallou <[email protected]> +Build-Depends: debhelper (>= 8.9.7), python (>= 2.5), python-simpletal (>=4.1), python-simplejson (>= 1.7.1), python-imaging (>= 1.1.5), python-lxml (>= 2.2.4) +Standards-Version: 3.9.4 +Homepage: https://projets.pasteur.fr/projects/show/mobyle +Vcs-Browser: http://svn.debian.org/wsvn/debian-med/trunk/packages/mobyle/mobyle/trunk/ +Vcs-Svn: svn://svn.debian.org/debian-med/trunk/packages/mobyle/mobyle/trunk/ + +Package: mobyle +Architecture: all +Depends: ${misc:Depends}, python (>= 2.5), apache2, python-simpletal (>=4.1), +# see INSTALL + python-simpletal (<< 5.0~), python-support (>= 0.90), python-pygraphviz, + python-simplejson (>= 1.7.1), python-imaging (>= 1.1.5), + python-lxml (>= 2.2.4), squizz (>=0.99b+dfsg), libjs-scriptaculous, libjs-jquery, libjs-prototype, mobyle-utils, jing, ttf-bitstream-vera +Suggests: python-openid (>= 2.2.4), python-dnspython (>= 1.5.0) +Recommends: mobyle-programs (>= 5.1) +Description: Web portal that provides web forms for command-line software + Mobyle is a framework and web portal specifically aimed at the integration of + bioinformatics software and databanks. It generates a web interface from an xml + description for command-line based tools. + It can submit jobs locally or using DRM systems. + . + This package will restart Apache after enabling the ‘rewrite’ and ‘headers’ + modules. + +Package: mobyle-utils +Architecture: any +Depends: ${misc:Depends},${shlibs:Depends} +Description: binary tools used by Mobyle + Binary tools used by the Mobyle web portal to manage + jobs. Deleted: trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/patches/change_mobylehome =================================================================== --- trunk/packages/mobyle/mobyle/trunk/debian/patches/change_mobylehome 2013-02-18 10:48:51 UTC (rev 13031) +++ trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/patches/change_mobylehome 2013-02-18 11:11:42 UTC (rev 13033) @@ -1,17 +0,0 @@ -Author: Olivier Sallou <[email protected]> -Description: Change the Mobyle path in generated path to fit to Debian paths -Last-Update: 2011-08-09 ---- a/setup.py -+++ b/setup.py -@@ -123,9 +123,9 @@ - l = f.readline() - if not l: break - if mob and l == 'MOBYLEHOME = None\n': -- l = l.replace('None', "'"+mob+"'", 1) -+ l = l.replace('None', "'debian/mobyle/usr/share/mobyle/core'", 1) - if htm and l == 'MOBYLEHTDOCS = None\n': -- l = l.replace('None', "'"+htm+"'", 1) -+ l = l.replace('None', "'debian/mobyle/usr/share/mobyle/htdocs'", 1) - g.write(l) - g.close() - f.close() Copied: trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/patches/change_mobylehome (from rev 13032, trunk/packages/mobyle/mobyle/trunk/debian/patches/change_mobylehome) =================================================================== --- trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/patches/change_mobylehome (rev 0) +++ trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/patches/change_mobylehome 2013-02-18 11:11:42 UTC (rev 13033) @@ -0,0 +1,17 @@ +Author: Olivier Sallou <[email protected]> +Description: Change the Mobyle path in generated path to fit to Debian paths +Last-Update: 2011-08-09 +--- a/setup.py ++++ b/setup.py +@@ -147,9 +147,9 @@ + if not l: + break + if mob and l == 'MOBYLEHOME = None\n': +- l = l.replace('None', "'"+mob+"'", 1) ++ l = l.replace('None', "'debian/mobyle/usr/share/mobyle/core'", 1) + if htm and l == 'MOBYLEHTDOCS = None\n': +- l = l.replace('None', "'"+htm+"'", 1) ++ l = l.replace('None', "'debian/mobyle/usr/share/mobyle/htdocs'", 1) + g.write(l) + g.close() + f.close() Deleted: trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/patches/defaultconfig =================================================================== --- trunk/packages/mobyle/mobyle/trunk/debian/patches/defaultconfig 2013-02-18 10:48:51 UTC (rev 13031) +++ trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/patches/defaultconfig 2013-02-18 11:11:42 UTC (rev 13033) @@ -1,42 +0,0 @@ -Author: Olivier Sallou <[email protected]> -Description: Set default config for ready-to-run app -Last-Update: 2011-08-09 ---- a/Example/Local/Config/Config.template.py -+++ b/Example/Local/Config/Config.template.py -@@ -10,13 +10,13 @@ - - - # the root url of mobyle --ROOT_URL = "http://mydomain.fr:port"; -+ROOT_URL = "http://localhost"; - - #base project url for mobyle cgis = ROOT_URL + CGI_PREFIX --CGI_PREFIX = 'cgi-bin/mobyle/xxxxx' -+CGI_PREFIX = 'cgi-bin/mobyle' - - #base project url for mobyle htdocs = ROOT_URL + HTDOCS_PREFIX --HTDOCS_PREFIX = 'mobyle/xxxxx' -+HTDOCS_PREFIX = 'mobyle' - - ######### - # # -@@ -94,8 +94,8 @@ - from Mobyle.Converter import * - - DATA_CONVERTER={ -- 'Sequence': [ squizz_sequence('/path/to/squizz') ] , -- 'Alignment': [ squizz_alignment('/path/to/squizz')] -+ 'Sequence': [ squizz_sequence('/usr/bin/squizz') ] , -+ 'Alignment': [ squizz_alignment('/usr/bin/squizz')] - } - - -@@ -150,7 +150,7 @@ - ## each element must be a valid path - ## the element order is kept to build the final PATH ( the binary path is add before the canonical PATH ) - --BINARY_PATH = ["/usr/local/bin"] -+BINARY_PATH = ["/usr/local/bin","/usr/lib/phylip/bin"] - - - #DATABANKS_CONFIG = { Copied: trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/patches/defaultconfig (from rev 13032, trunk/packages/mobyle/mobyle/trunk/debian/patches/defaultconfig) =================================================================== --- trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/patches/defaultconfig (rev 0) +++ trunk/packages/mobyle/mobyle/tags/1.5+dfsg-1/debian/patches/defaultconfig 2013-02-18 11:11:42 UTC (rev 13033) @@ -0,0 +1,42 @@ +Author: Olivier Sallou <[email protected]> +Description: Set default config for ready-to-run app +Last-Update: 2011-08-09 +--- a/Example/Local/Config/Config.template.py ++++ b/Example/Local/Config/Config.template.py +@@ -12,13 +12,13 @@ + # the root url of mobyle + # warning: do NOT include the port number if it is 80, it is useless + # and creates problems on the server +-ROOT_URL = "http://mydomain.fr:port"; ++ROOT_URL = "http://localhost"; + + #base project url for mobyle cgis = ROOT_URL + CGI_PREFIX +-CGI_PREFIX = 'cgi-bin/mobyle/xxxxx' ++CGI_PREFIX = 'cgi-bin/mobyle' + + #base project url for mobyle htdocs = ROOT_URL + HTDOCS_PREFIX +-HTDOCS_PREFIX = 'mobyle/xxxxx' ++HTDOCS_PREFIX = 'mobyle' + + ######### + # # +@@ -96,8 +96,8 @@ + from Mobyle.Converter import * + + DATA_CONVERTER={ +- 'Sequence': [ squizz_sequence('/path/to/squizz') ] , +- 'Alignment': [ squizz_alignment('/path/to/squizz')] ++ 'Sequence': [ squizz_sequence('/usr/bin/squizz') ] , ++ 'Alignment': [ squizz_alignment('/usr/bin/squizz')] + } + + +@@ -152,7 +152,7 @@ + ## each element must be a valid path + ## the element order is kept to build the final PATH ( the binary path is add before the canonical PATH ) + +-BINARY_PATH = ["/usr/local/bin"] ++BINARY_PATH = ["/usr/local/bin","/usr/lib/phylip/bin"] + + + #DATABANKS_CONFIG = { _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
