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commit c9e7072add617231dcdf8fda2598d4a5c88ad763 Author: Andreas Tille <[email protected]> Date: Tue Feb 14 16:12:33 2017 +0100 Point to local installed kronatools (in package radiant) --- debian/control | 1 + debian/patches/avoid_privacy_breach.patch | 73 +++++++++++++++++++++++++++++++ debian/patches/series | 1 + 3 files changed, 75 insertions(+) diff --git a/debian/control b/debian/control index 2d6e5fc..fdba2ed 100644 --- a/debian/control +++ b/debian/control @@ -32,6 +32,7 @@ Depends: ${misc:Depends}, mapdamage, phylip, picard-tools, + radiant, raxml, samtools Suggests: examl diff --git a/debian/patches/avoid_privacy_breach.patch b/debian/patches/avoid_privacy_breach.patch new file mode 100644 index 0000000..d6faec7 --- /dev/null +++ b/debian/patches/avoid_privacy_breach.patch @@ -0,0 +1,73 @@ +Author: Andreas Tille <[email protected]> +Last-Update: Tue, 14 Feb 2017 12:04:19 +0100 +Description: Point to local installed kronatools (in package radiant) + +--- a/paleomix/resources/examples/nature_protocols/example_results/profiling/krona/Figure_Krona_M.0182896.all.html ++++ b/paleomix/resources/examples/nature_protocols/example_results/profiling/krona/Figure_Krona_M.0182896.all.html +@@ -2,14 +2,14 @@ + <html xmlns="http://www.w3.org/1999/xhtml"; xml:lang="en" lang="en"> + <head> + <meta charset="utf-8"/> +- <link rel="shortcut icon" href="http://krona.sourceforge.net/img/favicon.ico"/> +- <script id="notfound">window.onload=function(){document.body.innerHTML="Could not get resources from \"http://krona.sourceforge.net\"."}</script> +- <script src="http://krona.sourceforge.net/src/krona-2.0.js";></script> ++ <link rel="shortcut icon" href="file:///usr/share/perl5/KronaTools/img/favicon.ico"/> ++ <script id="notfound">window.onload=function(){document.body.innerHTML="Could not get resources from kronatools - please install radiant package."}</script> ++ <script src="file:///usr/share/perl5/KronaTools/src/krona-2.0.js"></script> + </head> + <body> +- <img id="hiddenImage" src="http://krona.sourceforge.net/img/hidden.png"; style="display:none"/> +- <img id="loadingImage" src="http://krona.sourceforge.net/img/loading.gif"; style="display:none"/> +- <img id="logo" src="http://krona.sourceforge.net/img/logo.png"; style="display:none"/> ++ <img id="hiddenImage" src="file:///usr/share/perl5/KronaTools/img/img/hidden.png" style="display:none"/> ++ <img id="loadingImage" src="file:///usr/share/perl5/KronaTools/img/loading.uri" style="display:none"/> ++ <img id="logo" src="file:///usr/share/perl5/KronaTools/img/logo.png" style="display:none"/> + <noscript>Javascript must be enabled to view this page.</noscript> + <div style="display:none"> + <krona collapse="true" key="true"> +--- a/paleomix/resources/examples/nature_protocols/example_results/profiling/krona/Figure_Krona_Pi1845A.all.html ++++ b/paleomix/resources/examples/nature_protocols/example_results/profiling/krona/Figure_Krona_Pi1845A.all.html +@@ -2,14 +2,14 @@ + <html xmlns="http://www.w3.org/1999/xhtml"; xml:lang="en" lang="en"> + <head> + <meta charset="utf-8"/> +- <link rel="shortcut icon" href="http://krona.sourceforge.net/img/favicon.ico"/> +- <script id="notfound">window.onload=function(){document.body.innerHTML="Could not get resources from \"http://krona.sourceforge.net\"."}</script> +- <script src="http://krona.sourceforge.net/src/krona-2.0.js";></script> ++ <link rel="shortcut icon" href="file:///usr/share/perl5/KronaTools/img/favicon.ico"/> ++ <script id="notfound">window.onload=function(){document.body.innerHTML="Could not get resources from kronatools - please install radiant package."}</script> ++ <script src="file:///usr/share/perl5/KronaTools/src/krona-2.0.js"></script> + </head> + <body> +- <img id="hiddenImage" src="http://krona.sourceforge.net/img/hidden.png"; style="display:none"/> +- <img id="loadingImage" src="http://krona.sourceforge.net/img/loading.gif"; style="display:none"/> +- <img id="logo" src="http://krona.sourceforge.net/img/logo.png"; style="display:none"/> ++ <img id="hiddenImage" src="file:///usr/share/perl5/KronaTools/img/img/hidden.png" style="display:none"/> ++ <img id="loadingImage" src="file:///usr/share/perl5/KronaTools/img/loading.uri" style="display:none"/> ++ <img id="logo" src="file:///usr/share/perl5/KronaTools/img/logo.png" style="display:none"/> + <noscript>Javascript must be enabled to view this page.</noscript> + <div style="display:none"> + <krona collapse="true" key="true"> +--- a/paleomix/resources/examples/nature_protocols/example_results/profiling/krona/Figure_Krona_Pi1889.all.html ++++ b/paleomix/resources/examples/nature_protocols/example_results/profiling/krona/Figure_Krona_Pi1889.all.html +@@ -2,14 +2,14 @@ + <html xmlns="http://www.w3.org/1999/xhtml"; xml:lang="en" lang="en"> + <head> + <meta charset="utf-8"/> +- <link rel="shortcut icon" href="http://krona.sourceforge.net/img/favicon.ico"/> +- <script id="notfound">window.onload=function(){document.body.innerHTML="Could not get resources from \"http://krona.sourceforge.net\"."}</script> +- <script src="http://krona.sourceforge.net/src/krona-2.0.js";></script> ++ <link rel="shortcut icon" href="file:///usr/share/perl5/KronaTools/img/favicon.ico"/> ++ <script id="notfound">window.onload=function(){document.body.innerHTML="Could not get resources from kronatools - please install radiant package."}</script> ++ <script src="file:///usr/share/perl5/KronaTools/src/krona-2.0.js"></script> + </head> + <body> +- <img id="hiddenImage" src="http://krona.sourceforge.net/img/hidden.png"; style="display:none"/> +- <img id="loadingImage" src="http://krona.sourceforge.net/img/loading.gif"; style="display:none"/> +- <img id="logo" src="http://krona.sourceforge.net/img/logo.png"; style="display:none"/> ++ <img id="hiddenImage" src="file:///usr/share/perl5/KronaTools/img/img/hidden.png" style="display:none"/> ++ <img id="loadingImage" src="file:///usr/share/perl5/KronaTools/img/loading.uri" style="display:none"/> ++ <img id="logo" src="file:///usr/share/perl5/KronaTools/img/logo.png" style="display:none"/> + <noscript>Javascript must be enabled to view this page.</noscript> + <div style="display:none"> + <krona collapse="true" key="true"> diff --git a/debian/patches/series b/debian/patches/series index c186495..19b90b2 100644 --- a/debian/patches/series +++ b/debian/patches/series @@ -1,3 +1,4 @@ avoid_downloading_prerequisites.patch fix_makefile_test.patch work_around_os.getlogin.patch +avoid_privacy_breach.patch -- Alioth's /usr/local/bin/git-commit-notice on /srv/git.debian.org/git/debian-med/paleomix.git _______________________________________________ debian-med-commit mailing list [email protected] http://lists.alioth.debian.org/cgi-bin/mailman/listinfo/debian-med-commit
![http://krona.sourceforge.net/img/hidden.png"](http://krona.sourceforge.net/img/hidden.png"){kind=link}
![http://krona.sourceforge.net/img/loading.gif"](http://krona.sourceforge.net/img/loading.gif"){kind=link}
![http://krona.sourceforge.net/img/logo.png"](http://krona.sourceforge.net/img/logo.png"){kind=link}