diff -Nru gff2aplot-2.0/debian/changelog gff2aplot-2.0/debian/changelog --- gff2aplot-2.0/debian/changelog 2017-11-14 10:15:53.000000000 +0000 +++ gff2aplot-2.0/debian/changelog 2018-10-20 21:57:37.000000000 +0000 @@ -1,3 +1,13 @@ +gff2aplot (2.0-10) unstable; urgency=medium + + * debhelper 11 + * Point Vcs fields to salsa.debian.org + * Standards-Version: 4.2.1 + * Secure URI in copyright format + * Fix privacy issues by providing images, js and css locally + + -- Andreas Tille Sat, 20 Oct 2018 23:57:37 +0200 + gff2aplot (2.0-9) unstable; urgency=medium * Moved packaging from SVN to Git diff -Nru gff2aplot-2.0/debian/compat gff2aplot-2.0/debian/compat --- gff2aplot-2.0/debian/compat 2017-11-14 10:15:53.000000000 +0000 +++ gff2aplot-2.0/debian/compat 2018-10-20 21:57:37.000000000 +0000 @@ -1 +1 @@ -10 +11 diff -Nru gff2aplot-2.0/debian/control gff2aplot-2.0/debian/control --- gff2aplot-2.0/debian/control 2017-11-14 10:15:53.000000000 +0000 +++ gff2aplot-2.0/debian/control 2018-10-20 21:57:37.000000000 +0000 @@ -4,10 +4,10 @@ Andreas Tille Section: science Priority: optional -Build-Depends: debhelper (>= 10) -Standards-Version: 4.1.1 -Vcs-Browser: https://anonscm.debian.org/cgit/debian-med/gff2aplot.git -Vcs-Git: https://anonscm.debian.org/git/debian-med/gff2aplot.git +Build-Depends: debhelper (>= 11~) +Standards-Version: 4.2.1 +Vcs-Browser: https://salsa.debian.org/med-team/gff2aplot +Vcs-Git: https://salsa.debian.org/med-team/gff2aplot.git Homepage: http://genome.imim.es/software/gfftools/GFF2APLOT.html Package: gff2aplot diff -Nru gff2aplot-2.0/debian/copyright gff2aplot-2.0/debian/copyright --- gff2aplot-2.0/debian/copyright 2017-11-14 10:15:53.000000000 +0000 +++ gff2aplot-2.0/debian/copyright 2018-10-20 21:57:37.000000000 +0000 @@ -1,4 +1,4 @@ -Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ +Format: https://www.debian.org/doc/packaging-manuals/copyright-format/1.0/ Upstream-Name: GFF2APLOT Upstream-Contact: Josep Francesc ABRIL FERRANDO Source: http://genome.imim.es/software/gfftools/GFF2APLOT.html diff -Nru gff2aplot-2.0/debian/examples gff2aplot-2.0/debian/examples --- gff2aplot-2.0/debian/examples 2017-11-14 10:15:53.000000000 +0000 +++ gff2aplot-2.0/debian/examples 2018-10-20 21:57:37.000000000 +0000 @@ -1 +1,2 @@ examples/* +debian/imgs Binary files /tmp/tmpxBx5LO/5mNyaYifu6/gff2aplot-2.0/debian/imgs/dmd.gif and /tmp/tmpxBx5LO/8N_4ZkVbTJ/gff2aplot-2.0/debian/imgs/dmd.gif differ diff -Nru gff2aplot-2.0/debian/imgs/Genome.css gff2aplot-2.0/debian/imgs/Genome.css --- gff2aplot-2.0/debian/imgs/Genome.css 1970-01-01 00:00:00.000000000 +0000 +++ gff2aplot-2.0/debian/imgs/Genome.css 2018-10-20 21:57:37.000000000 +0000 @@ -0,0 +1,376 @@ +/* GENOME BIOINFORMATICS */ +/* RESEARCH LABORATORY */ +/* Global Style Sheet */ + +/*$Id: Genome.css,v 1.28 2003/06/03 16:35:45 gmaster Exp gmaster $*/ + +BODY, BLOCKQUOTE, P, CENTER, +DD, DIV, FIELDSET, PRE, FORM, +FRAME, FRAMESET, IFRAME, NOFRAMES, +OBJECT, APPLET, HR, +UL, OL, MENU { + display: block } +LI, DL, DD, DT { + display: block } +H1, H2, H3, H4, H5, H6 { + display: table-cell } +HEAD { display: none } +TABLE { display: table } +TR { display: table-row } +TBODY { display: table-row-group } +COL { display: table-column } +COLGROUP { display: table-column-group } +TD, TH { display: table-cell } +IMG { display: run-in } +TT, CODE, EM { + display: inline } + +BODY { + background-color: #009F9F; + color: black; + border-collapse: collapse; +/* This does not work on newer browsers like N6 */ +/* position: fixed; */ + top: 0px; + bottom: auto; + left: 0px; + right: 0px; + padding: 0px; + border: 0px; + line-height/* */ : 1.33em; +} + +*, .default { + top: 0; + bottom: 0; + left: 0; + right: 0; + border: 0; + padding: 0; +/* spacing: 0; */ + margin: 0; + text-indent: 0; +} + +.hh { + line-height/* */ : 80%; +} +.hhh { + line-height/* */ : 50%; +} + +P { + margin-left: 10px; + margin-right: 10px; + margin-bottom: 10px; + text-align: justify; + font-family: "Arial", "Helvetica", sans-serif; + font-weight: normal; + font-size: 12px; +} + +TEXTAREA { + font-family: "Monospaced", "Courier", sans-serif; + font-weight: normal; + font-size: 12px; +} + +INPUT, SELECT { + font-family: "Arial", "Helvetica", sans-serif; + font-weight: normal; + font-size: 12px; +} + +.tbl { + vertical-align: top; + font-family: "Arial", "Helvetica", sans-serif; +/* font-weight: normal; */ + font-size: 12px; +} + +A:link { + color: #008080; + text-decoration: none; +} +A:visited { + color: #800000; + text-decoration: none; +} +A:hover, A:active, A:focus { text-decoration: underline; } +/* :focus { outline: thin solid invert; } */ + +B { + font-weight: bold; +} + +I { + font-style: italic; +} + +EM { + font-family: "Monospaced", "Courier", sans-serif; + font-weight: normal; + font-style: italic; + font-stretch: expanded; + color: green; +} + +TT, CODE { + font-family: "Monospaced", "Courier", sans-serif; + font-weight: normal; +} + +TT { + color: gray; + font-stretch: expanded; +} + +.K, .T { + display: run-in +} +H1, H2, .K, .T { + color: white; +} +H1, H2, .K, .T { + font-family: "Arial", "Helvetica", sans-serif; + font-weight: bold; + font-stretch: expanded; + border: none; + line-height/* */ : 100%; +} +P H1, P H2, P H3, P .K, P .T { + color: black; +} +H1, .T { + font-size: 24px; + padding: 5px; + text-indent: 0; + } +H2, .K { + border: none; + padding: 0; + text-indent: 0; + font-size: 20px; + width: auto; + } +H3 { font-size: 16px; } +H4, UL, OL { + background-color: white; + color: black; + font-family: "Arial", "Helvetica", sans-serif; + font-weight: bold; + font-size: 12px; + line-height/* */ : 110%; +} + +MENU { + background-color: white; + color: black; + font-family: "Arial", "Helvetica", sans-serif; + font-weight: normal; + font-size: 12px; + line-height/* */ : 110%; + list-style: outside; + list-style-type: circle; +} + +UL { + list-style: outside; + list-style-type: disc; +} +OL { + list-style: outside; + list-style-type: decimal; +} + +UL, OL, DL, MENU { + margin-left: 5px; + margin-right: 10px; +} + +UL UL, OL OL, MENU * { + margin-left: 10px; + margin-right: 10px; + font-family: "Arial", "Helvetica", sans-serif; + font-weight: normal; + font-size: 12px; +} + +UL UL UL, OL OL OL { + margin-left: 15px; + margin-right: 10px; +} + +LI { + background-color: white; + color: black; +} + +.lst { + font-weight: normal; +} + +IMG.pnt { + padding-left: 5px; + padding-right: 0px; +} +IMG.mid { + padding-left: 5px; +} + +.ppath { + color: white; + background-color: red; + font-family: "Arial", "Helvetica", sans-serif; + font-size: 12px; + font-weight: bold; +} +.path { + border: 1px solid #005050; + color: white; + background-color: red; + font-family: "Arial", "Helvetica", sans-serif; + font-size: 12px; + font-weight: bold; + line-height/* */ : 110%; +} +.path :link, .path :visited { + color: white; + text-decoration: none; +} +.path :visited { + font-weight: bold; +} + +.userspace { + background-color: white; + color: black; + font-family: "Arial", "Helvetica", sans-serif; + font-size: 12px; + text-align: justify; + vertical-align: top; +} + +.section { + background-color: #008080; + color: white; + margin-top: 0; + margin-bottom: 0; + margin-left: 5px; + padding-top: 0; + padding-bottom: 0; +} + +#traila { + text-align: center; + font-family: "Arial", "Helvetica", sans-serif; + font-weight: bold; + font-size: 15px; + text-align: left; +} +#trailb { + text-align: center; + font-family: "Arial", "Helvetica", sans-serif; + font-weight: bold; + font-size: 12px; + color: white; + line-height/* */ : 85%; +} +#trailc { + text-align: center; + font-family: "Arial", "Helvetica", sans-serif; + font-weight: bold; + font-size: 15px; + text-align: right; +} +.trailer { + padding: 2px; +} + +.names { + font-family: "Arial", "Helvetica", sans-serif; + font-size: 12px; + color: black; +} + +.links { + vertical-align: top; + font-family: "Arial", "Helvetica", sans-serif; + font-weight: bold; + font-size: 12px; + line-height/* */ : 95%; + border: none; + padding: 0px; +} +.links :link, #traila :link, #trailc :link, +.links :visited, #traila :visited, #trailc :visited { + color: #005050; +} +.links :hover, .links :active, .links :focus, +.path :hover, .path :active, .path :focus { + text-decoration: underline; +} + +.menu { + text-align: left; + vertical-align: top; +} + +.title { + text-align: center; + vertical-align: middle; +} + +.index { + color: white; + line-height/* */ : 100%; + text-align: center; + font-family: "Arial", "Helvetica", sans-serif; + font-weight: bold; + font-size: 12px; + border: none; + padding: 0px; +} + +.mvleft { + position: relative; + left: -15px; +} + +.home { + line-height/* */ : 80%; + color: white; + font-family: "Arial", "Helvetica", sans-serif; + font-size: 22px; + font-weight: bold; + font-stretch: expanded; + text-align: center; + border: none; +} +.tit, .tgen { + color: white; + font-family: "Arial", "Helvetica", sans-serif; + font-weight: bold; + font-stretch: expanded; + border: none; +} +.tit { + font-size: 20px; + line-height/* */ : 120%; +} +.tgen { + font-size: 25px; + line-height/* */ : 100%; +} + +.alt { + display: none; +} + + .float-right {/* paragraph element float */ + float: right; + width: 30em; + padding: 0.3em 0.3em 0.3em 0.3em; + border: 2px dotted #800000; + + } diff -Nru gff2aplot-2.0/debian/imgs/Genome_forms_mozilla.css gff2aplot-2.0/debian/imgs/Genome_forms_mozilla.css --- gff2aplot-2.0/debian/imgs/Genome_forms_mozilla.css 1970-01-01 00:00:00.000000000 +0000 +++ gff2aplot-2.0/debian/imgs/Genome_forms_mozilla.css 2018-10-20 21:57:37.000000000 +0000 @@ -0,0 +1,92 @@ +/* GENOME BIOINFORMATICS */ +/* RESEARCH LABORATORY */ +/* Forms "Special" Style Sheet */ +/* (to apply to mozilla engine */ +/* based browsers ---N6, M6, */ +/* O5, ...--- and IE>5 ) */ + +/*$Id: Genome_forms_mozilla.css,v 1.9 2003/06/03 16:35:51 gmaster Exp $*/ + +/* TEXTAREA { */ +/* display: block; */ +/* } */ +/* INPUT { */ +/* display: inline; */ +/* } */ +/* SELECT { */ +/* display: run-in; */ +/* } */ + +HR { + border: 1px inset; + color: black; +} + +LI, DL, DD, DT { + display: list-item; +} + +P { + margin-left: 5px; + margin-right: 5px; + padding-left: 10px; +} + +TEXTAREA { + cursor: text; +} + +TEXTAREA, INPUT, SELECT { + border-width: thin; + border-style: solid; + border-color: black; + vertical-align: baseline; +} + +/* Redefining Sections to improve their boxes */ +.section { + background-color: #008080; + color: white; + margin-top: 0; + margin-bottom: 0; + margin-left: 5px; + padding-top: 3px; + padding-bottom: 3px; + padding-left: 5px; +} + +UL, OL, DL, MENU { + margin-left: 30px; +} +UL UL, OL OL, DL DL, MENU * { + margin-left: 35px; +} +UL UL UL, OL OL OL { + margin-left: 40px; +} +OL { + counter-reset: gencnt; +} +LI:before { + display: marker; + marker-offset: 1px; + text-align: right; +} +OL LI:before { + content: "" counter(gencnt) "."; + counter-increment: gencnt; +} +.home { + line-height/* */ : 150%; + text-align: center; +} +.tit { + line-height/* */ : 150%; +} +.tgen { + line-height/* */ : 120%; +} + +P * CENTER { + text-align: center; +} diff -Nru gff2aplot-2.0/debian/imgs/genome.js gff2aplot-2.0/debian/imgs/genome.js --- gff2aplot-2.0/debian/imgs/genome.js 1970-01-01 00:00:00.000000000 +0000 +++ gff2aplot-2.0/debian/imgs/genome.js 2018-10-20 21:57:37.000000000 +0000 @@ -0,0 +1,140 @@ +// +// Genome.js +// +// $Id: Genome.js,v 1.5 2003/06/03 16:37:01 gmaster Exp $ +// + +// ### JavaScript Error Checking ### +onerror = myOnError; +msgArray = new Array(); +urlArray = new Array(); +lnoArray = new Array(); +function myOnError(msg, url, lno) { + msgArray[msgArray.length] = msg; + urlArray[urlArray.length] = url; + lnoArray[lnoArray.length] = lno; + return true; +} +function displayErrors() { + if (msgArray.length == 0) { + // document.write('This page is being displayed on ' + navName + ' ' + brNum + ' [NS4==' + NS4 + '] '); + return true; + } + for (var i=0; i < msgArray.length; i++) { + document.writeln(''); + document.writeln(''); + document.writeln(''); + document.writeln(''); + document.writeln('
Error in file:   ' + urlArray[i] + '
Line number:   ' + lnoArray[i] + '
Message:   ' + msgArray[i] + '

'); + } + return true; +} +function reportErrors() { + if (msgArray.length == 0) { + // document.write('This page is being displayed on ' + navName + ' ' + brNum + ' [NS4==' + NS4 + '] '); + return true; + } + for (var i=0; i < msgArray.length; i++) { + document.writeln(''); + document.writeln(''); + document.writeln('
'); + document.writeln(''); + document.writeln(''); + document.writeln(''); + document.writeln(''); + document.writeln('
Error in file:   ' + urlArray[i] + '
Line number:   ' + lnoArray[i] + '
Message:   ' + msgArray[i] + '
'); + } + return true; +} + +// This script and many more are available free online at +// The JavaScript Source!! http://javascript.internet.com +// Jeff Lance (jflance@aol.com) +//-- Begin borrowed +var navName = navigator.appName ; +var brVer = navigator.userAgent; +var brNum; +var reg = new RegExp('/'); +function verNumIE() { + var brVerId = brVer.indexOf('MSIE'); + brNum = brVer.substr(brVerId,8); +} +function verNumOt() { + var brVerId = brVer.search(reg); + brNum = brVer.substring(brVerId+1); +} +if (navName == 'Microsoft Internet Explorer') { verNumIE() ; } +else { verNumOt() ; } +//-- End borrowed + +// ### Window Size related### +// window.location.href = 'index.html'; +if (window != top) { top.location.href = location.href; } +// +var NS4 = 0; +var bVer = parseFloat(brNum); +if ((bVer < 4.1) && (navName == 'Netscape')) NS4 = 1; // 4.04 +function init() { + if (NS4) { setTimeout("window.onresize = redo", 1000); } + else { window.location.reload(); } +} +function redo() { + window.location.reload(); +} +// window.onload = "init();"; +window.onreload = "init();"; +window.onresize = "init();"; +function onResize() { + window.onreload = "init();"; + window.onresize = "init();"; +} + +// ### Misc ### +function displayURL() { + var sURL = window.location.pathname ; // unescape(window.location.pathname); + document.write('http://genome.crg.es' + sURL + ''); +} +// +function LastUpdate() { + var theDate = ""; + theDate = document.lastModified; + document.write("Last Updated "+theDate+" © Genome BioInformatics Research Laboratory"); +} +// +function LastUpdateSplit() { + var theDate = ""; + theDate = document.lastModified; + document.write("Last Updated "+theDate+"
© Genome BioInformatics Research Laboratory"); +} +// Expiration date: NewIcon("MM/DD/YYYY") +function NewIcon(todate) { + NewHTML(todate," NEW"); +} +function NewHTML(todate,toput) { + exp = new Date(todate); + cur = new Date(); + if (cur.getTime() < exp.getTime()) { document.write(" "+toput); } + else { document.write(" "); } +} + +/* + FILE ARCHIVED ON 10:39:05 Dec 11, 2009 AND RETRIEVED FROM THE + INTERNET ARCHIVE ON 09:48:18 Oct 20, 2018. + JAVASCRIPT APPENDED BY WAYBACK MACHINE, COPYRIGHT INTERNET ARCHIVE. + + ALL OTHER CONTENT MAY ALSO BE PROTECTED BY COPYRIGHT (17 U.S.C. + SECTION 108(a)(3)). +*/ +/* +playback timings (ms): + LoadShardBlock: 59.719 (3) + esindex: 0.007 + captures_list: 77.607 + CDXLines.iter: 13.422 (3) + PetaboxLoader3.datanode: 65.978 (4) + exclusion.robots: 0.154 + exclusion.robots.policy: 0.142 + RedisCDXSource: 1.606 + PetaboxLoader3.resolve: 38.191 + load_resource: 51.792 +*/ \ No newline at end of file diff -Nru gff2aplot-2.0/debian/imgs/get_from_web_archive gff2aplot-2.0/debian/imgs/get_from_web_archive --- gff2aplot-2.0/debian/imgs/get_from_web_archive 1970-01-01 00:00:00.000000000 +0000 +++ gff2aplot-2.0/debian/imgs/get_from_web_archive 2018-10-20 21:57:37.000000000 +0000 @@ -0,0 +1,7 @@ +# JS and css vanished from web +wget https://web.archive.org/web/20091211103905/http://genome.imim.es/genome.js +wget https://web.archive.org/web/20050404185424/http://genome.imim.es:80/software/gfftools/gff2aplot_docs/HowTo.css + +# other files +wget http://genome.imim.es/Genome.css +wget http://genome.imim.es/Genome_forms_mozilla.css diff -Nru gff2aplot-2.0/debian/imgs/HowTo.css gff2aplot-2.0/debian/imgs/HowTo.css --- gff2aplot-2.0/debian/imgs/HowTo.css 1970-01-01 00:00:00.000000000 +0000 +++ gff2aplot-2.0/debian/imgs/HowTo.css 2018-10-20 21:57:37.000000000 +0000 @@ -0,0 +1,67 @@ +/* GENOME INFORMATICS */ +/* RESEARCH LABORATORY */ +/* GFFTOOLS HowTo Style Sheet */ + +/*$Id: HowTo.css,v 1.2 2003/05/30 17:50:58 gmaster Exp $*/ + +H3 { + display: block; + line-height: 75%; + padding-bottom: 0px; + border-bottom: 0px; + margin-bottom: 0px; + margin-top: 8px; +} +.home { + line-height: 80%; + color: white; + font-family: "Arial", "Helvetica", sans-serif; + font-size: 18px; + font-weight: bold; + font-stretch: expanded; + text-align: center; + border: none; +} +.ytbl, .rtbl { + vertical-align: top; + font-family: "Arial", "Helvetica", sans-serif; + font-size: 12px; +} +.ytbl { + background: #FAFAD2; /* light yellow */ +} +.rtbl { + background: #FFCCAA; /* light red */ +} +.codebg { + display: table-cell; + background: #DDFFDD; +} +.codefg { + font-family: "Monospaced", "Courier", sans-serif; + font-weight: normal; + font-size: 12px; + color: #000000; +} + +/* + FILE ARCHIVED ON 18:54:24 Apr 04, 2005 AND RETRIEVED FROM THE + INTERNET ARCHIVE ON 09:49:07 Oct 20, 2018. + JAVASCRIPT APPENDED BY WAYBACK MACHINE, COPYRIGHT INTERNET ARCHIVE. + + ALL OTHER CONTENT MAY ALSO BE PROTECTED BY COPYRIGHT (17 U.S.C. + SECTION 108(a)(3)). +*/ +/* +playback timings (ms): + LoadShardBlock: 197.985 (3) + esindex: 0.009 + captures_list: 216.277 + CDXLines.iter: 12.375 (3) + PetaboxLoader3.datanode: 191.824 (4) + exclusion.robots: 0.193 + exclusion.robots.policy: 0.18 + RedisCDXSource: 2.583 + PetaboxLoader3.resolve: 79.838 (2) + load_resource: 101.02 +*/ \ No newline at end of file Binary files /tmp/tmpxBx5LO/5mNyaYifu6/gff2aplot-2.0/debian/imgs/lhr.gif and /tmp/tmpxBx5LO/8N_4ZkVbTJ/gff2aplot-2.0/debian/imgs/lhr.gif differ Binary files /tmp/tmpxBx5LO/5mNyaYifu6/gff2aplot-2.0/debian/imgs/top.gif and /tmp/tmpxBx5LO/8N_4ZkVbTJ/gff2aplot-2.0/debian/imgs/top.gif differ diff -Nru gff2aplot-2.0/debian/patches/fis-privacy-breach.patch gff2aplot-2.0/debian/patches/fis-privacy-breach.patch --- gff2aplot-2.0/debian/patches/fis-privacy-breach.patch 1970-01-01 00:00:00.000000000 +0000 +++ gff2aplot-2.0/debian/patches/fis-privacy-breach.patch 2018-10-20 21:57:37.000000000 +0000 @@ -0,0 +1,208 @@ +Description: Fix privacy issues by linking to local images, js and css locally +Author: Andreas Tille +Last-Update Sat, 20 Oct 2018 14:15:43 +0200 + +--- a/examples/mhcregion/index.html ++++ b/examples/mhcregion/index.html +@@ -9,12 +9,12 @@ + + GFF2APLOT HOWTOs: SIM output for a syntenic sequences pair. + +- +- ++ ++ + +- ++ + + + +@@ -81,39 +81,39 @@ + IMIM + +-* ++* + + UPF + +-* ++* + + CRG + +-* ++* + + GRIB + + +-HOME ++HOME + + + SOFTWARE + +-* ++* + + gff2aplot + +-* ++* + + HowTo + +-* ++* + + SIM Data +@@ -164,7 +164,7 @@ Bitmaps for the examples were generated + + +- ++ + + +


+@@ -188,7 +188,7 @@ $BIN/ali2gff -x "X87344" \ + + +- ++ + + +


+@@ -240,7 +240,7 @@ gff2aplot.pl + + +- ++ + + +


+@@ -275,7 +275,7 @@ gff2aplot.pl + + +- ++ + + +


+--- a/examples/wublast/index.html ++++ b/examples/wublast/index.html +@@ -9,12 +9,12 @@ + + GFF2APLOT HOWTOs: Plotting WU-BLAST Results. + +- +- ++ ++ + +- ++ + + + +@@ -81,39 +81,39 @@ + IMIM + +-* ++* + + UPF + +-* ++* + + CRG + +-* ++* + + GRIB + + +-HOME ++HOME + + + SOFTWARE + +-* ++* + + gff2aplot + +-* ++* + + HowTo + +-* ++* + + WU-BLAST Data +@@ -163,7 +163,7 @@ Bitmaps for the examples were generated + + +- ++ + + +


+@@ -212,7 +212,7 @@ $BIN/parseblast.pl --verbose --no-frame + + +- ++ + + +


+@@ -263,7 +263,7 @@ gff2aplot.pl + + +- ++ + + +


+@@ -313,7 +313,7 @@ gff2aplot.pl + + +- ++ + + +


diff -Nru gff2aplot-2.0/debian/patches/series gff2aplot-2.0/debian/patches/series --- gff2aplot-2.0/debian/patches/series 2017-11-14 10:15:53.000000000 +0000 +++ gff2aplot-2.0/debian/patches/series 2018-10-20 21:57:37.000000000 +0000 @@ -2,3 +2,4 @@ 03-parseblast.diff use-dpkg-buildflags.patch mayhem.patch +fis-privacy-breach.patch diff -Nru gff2aplot-2.0/debian/source/include-binaries gff2aplot-2.0/debian/source/include-binaries --- gff2aplot-2.0/debian/source/include-binaries 1970-01-01 00:00:00.000000000 +0000 +++ gff2aplot-2.0/debian/source/include-binaries 2018-10-20 21:57:37.000000000 +0000 @@ -0,0 +1,4 @@ +debian/imgs/top.gif +debian/imgs/lhr.gif +debian/imgs/dmd.gif + diff -Nru gff2aplot-2.0/debian/upstream/metadata gff2aplot-2.0/debian/upstream/metadata --- gff2aplot-2.0/debian/upstream/metadata 2017-11-14 10:15:53.000000000 +0000 +++ gff2aplot-2.0/debian/upstream/metadata 2018-10-20 21:57:37.000000000 +0000 @@ -1,12 +1,20 @@ Reference: - Author: J. F. Abril and R. Guigó and T. Wiehe - Title: "gff2aplot: Plotting sequence comparisons" - Journal: Bioinformatics - Year: 2003 - Volume: 19 - Number: 18 - Pages: 2477-2479 - DOI: 10.1093/bioinformatics/btg334 - PMID: 4668236 - URL: http://bioinformatics.oxfordjournals.org/content/19/18/2477.abstract - eprint: http://bioinformatics.oxfordjournals.org/content/19/18/2477.full.pdf+html + Author: J. F. Abril and R. Guigó and T. Wiehe + Title: "gff2aplot: Plotting sequence comparisons" + Journal: Bioinformatics + Year: 2003 + Volume: 19 + Number: 18 + Pages: 2477-2479 + DOI: 10.1093/bioinformatics/btg334 + PMID: 4668236 + URL: http://bioinformatics.oxfordjournals.org/content/19/18/2477.abstract + ePrint: > + http://bioinformatics.oxfordjournals.org/content/19/18/2477.full.pdf+html +Registry: + - Name: OMICtools + Entry: OMICS_19949 + - Name: bio.tools + Entry: gff2aplot + - Name: SciCrunch + Entry: NA