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<h3>
Andreas Tille pushed to branch master
at <a href="https://salsa.debian.org/med-team/tm-align">Debian Med / tm-align</a>
</h3>
<h4>
Commits:
</h4>
<ul>
<li>
<strong><a href="https://salsa.debian.org/med-team/tm-align/commit/433751f8837b8ca4e3b089aec60717063b5ba8ca">433751f8</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-10-30T10:56:30Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Point Vcs fields to salsa.debian.org
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/tm-align/commit/5da893ba0e5a0a61ee7c2269c233726279c2d8ce">5da893ba</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-10-30T10:56:30Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Standards-Version: 4.2.1
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/tm-align/commit/e5f7c6655e33d37d7ec429f7f12f2e1633e63461">e5f7c665</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-10-30T10:56:30Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Secure URI in copyright format
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/tm-align/commit/5c832c64c8ddd3ae773de6512d34ec15f3c5ba9a">5c832c64</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-10-30T10:56:31Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove trailing whitespace in debian/changelog
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/tm-align/commit/6d0f1499cd76e8a39da05cc59c81de28a200a2d6">6d0f1499</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-10-30T10:56:31Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Remove trailing whitespace in debian/copyright
</pre>
</li>
<li>
<strong><a href="https://salsa.debian.org/med-team/tm-align/commit/8e8034d1eabe3ad26b4b061880bae25b48e36d1e">8e8034d1</a></strong>
<div>
<span>by Andreas Tille</span>
<i>at 2018-10-30T10:58:09Z</i>
</div>
<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">Upload to unstable
</pre>
</li>
</ul>
<h4>3 changed files:</h4>
<ul>
<li class="file-stats">
<a href="#9c96da0e9f91d7d8937b69b524702c106258f0d1">
debian/changelog
</a>
</li>
<li class="file-stats">
<a href="#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2">
debian/control
</a>
</li>
<li class="file-stats">
<a href="#adb7f75f79e3bb85eb62912a2904c5d24af878fb">
debian/copyright
</a>
</li>
</ul>
<h4>Changes:</h4>
<li id="9c96da0e9f91d7d8937b69b524702c106258f0d1">
<a href="https://salsa.debian.org/med-team/tm-align/compare/c5fc579fa4f5c5412d3c23616bb04709486e440e...8e8034d1eabe3ad26b4b061880bae25b48e36d1e#9c96da0e9f91d7d8937b69b524702c106258f0d1"><strong>debian/changelog</strong></a>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">tm-align (20170708+dfsg-2) unstable; urgency=medium</span>
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<pre style="margin: 0;">+<span id="LC2" class="line" lang="plaintext"></span>
</pre>
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<td class="diff-line-num new new_line" data-linenumber="3" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext"> * Point Vcs fields to salsa.debian.org</span>
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<td class="diff-line-num new new_line" data-linenumber="4" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC4" class="line" lang="plaintext"> * Standards-Version: 4.2.1</span>
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<td class="diff-line-num new new_line" data-linenumber="5" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"> * Secure URI in copyright format</span>
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<td class="diff-line-num new new_line" data-linenumber="6" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC6" class="line" lang="plaintext"> * Remove trailing whitespace in debian/changelog</span>
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<pre style="margin: 0;">+<span id="LC7" class="line" lang="plaintext"> * Remove trailing whitespace in debian/copyright</span>
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<pre style="margin: 0;">+<span id="LC8" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC9" class="line" lang="plaintext"> -- Andreas Tille <tille@debian.org> Tue, 30 Oct 2018 11:56:31 +0100</span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext"></span>
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<td class="diff-line-num new_line" data-linenumber="11" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext">tm-align (20170708+dfsg-1) unstable; urgency=medium</span>
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<td class="diff-line-num new_line" data-linenumber="12" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"></span>
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<td class="diff-line-num new_line" data-linenumber="13" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext"> * New upstream version</span>
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<td class="diff-line-num unfold js-unfold old_line" data-linenumber="12" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="diff-line-num unfold js-unfold new_line" data-linenumber="22" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">...</td>
<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -12,7 +22,7 @@ tm-align (20160521+dfsg-2) unstable; urgency=medium</td>
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<td class="diff-line-num new_line" data-linenumber="22" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext"></span>
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<td class="diff-line-num old_line" data-linenumber="13" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="23" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext"> * Team upload.</span>
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<td class="diff-line-num old_line" data-linenumber="14" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<td class="diff-line-num new_line" data-linenumber="24" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #f0f0f0; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#fafafa">
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<pre style="margin: 0;"> <span id="LC24" class="line" lang="plaintext"> * fix typo in package's description in d/control</span>
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<td class="diff-line-num old old_line" data-linenumber="15" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #fac5cd; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#f9d7dc">
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="plaintext"> * add example gzipped protein structures+mention them in d/source/binaries<span class="idiff left right"> </span></span>
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<td class="diff-line-num new new_line" data-linenumber="25" style="width: 35px; color: rgba(0,0,0,0.3); border-right-width: 1px; border-right-color: #c7f0d2; border-right-style: solid; padding: 0 5px;" align="right" bgcolor="#ddfbe6">
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<pre style="margin: 0;">+<span id="LC25" class="line" lang="plaintext"> * add example gzipped protein structures+mention them in d/source/binaries</span>
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<pre style="margin: 0;"> <span id="LC26" class="line" lang="plaintext"> * add testsuite</span>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="plaintext"> * add README.test for testsuite</span>
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18
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="plaintext"> * add example files to d/copyright, add tm-align.examples file</span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -140,7 +150,7 @@ tm-align (20110124-1) UNRELEASED; urgency=low</td>
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140
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<pre style="margin: 0;"> <span id="LC150" class="line" lang="plaintext"> - 2010/08/02: A new RMSD matrix was used to remove obsolete</span>
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141
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151
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<pre style="margin: 0;"> <span id="LC151" class="line" lang="plaintext"> statements. Staled subroutines were deleted.</span>
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142
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152
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<pre style="margin: 0;"> <span id="LC152" class="line" lang="plaintext"> - 2011/01/03: The length of pdb file names were extended to 500</span>
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143
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<pre style="margin: 0;">-<span id="LC143" class="line" lang="plaintext"> - 2011/01/24: Fixed a bug on output file name created on 2011/01/03<span class="idiff left right"> </span></span>
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153
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<pre style="margin: 0;">+<span id="LC153" class="line" lang="plaintext"> - 2011/01/24: Fixed a bug on output file name created on 2011/01/03</span>
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144
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154
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<pre style="margin: 0;"> <span id="LC154" class="line" lang="plaintext"> * Tweaked get-orig-source in rules to spot version in upstream file</span>
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145
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155
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<pre style="margin: 0;"> <span id="LC155" class="line" lang="plaintext"></span>
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146
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<pre style="margin: 0;"> <span id="LC156" class="line" lang="plaintext"> * New standards version 3.9.4</span>
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<a href="https://salsa.debian.org/med-team/tm-align/compare/c5fc579fa4f5c5412d3c23616bb04709486e440e...8e8034d1eabe3ad26b4b061880bae25b48e36d1e#58ef006ab62b83b4bec5d81fe5b32c3b4c2d1cc2"><strong>debian/control</strong></a>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -7,9 +7,9 @@ Section: science</td>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">Priority: optional</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext">Build-Depends: debhelper (>= 11~),</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext"> gfortran</span>
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10
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">1.3</span></span>
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11
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<pre style="margin: 0;">-<span id="LC11" class="line" lang="plaintext">Vcs-Browser: https://<span class="idiff left right">anonscm.debian.org/cgit/debian-med/tm-align.git</span></span>
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12
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<pre style="margin: 0;">-<span id="LC12" class="line" lang="plaintext">Vcs-Git: https://<span class="idiff left right">anonscm.debian.org/git/debian-med</span>/tm-align.git</span>
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10
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext">Standards-Version: 4.<span class="idiff left right">2.1</span></span>
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11
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<pre style="margin: 0;">+<span id="LC11" class="line" lang="plaintext">Vcs-Browser: https://<span class="idiff left right">salsa.debian.org/med-team/tm-align</span></span>
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12
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<pre style="margin: 0;">+<span id="LC12" class="line" lang="plaintext">Vcs-Git: https://<span class="idiff left right">salsa.debian.org/med-team</span>/tm-align.git</span>
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13
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext">Homepage: http://zhanglab.ccmb.med.umich.edu/TM-align/</span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext">Package: tm-align</span>
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<a href="https://salsa.debian.org/med-team/tm-align/compare/c5fc579fa4f5c5412d3c23616bb04709486e440e...8e8034d1eabe3ad26b4b061880bae25b48e36d1e#adb7f75f79e3bb85eb62912a2904c5d24af878fb"><strong>debian/copyright</strong></a>
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1
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="plaintext">Format: http://www.debian.org/doc/packaging-manuals/copyright-format/1.0/</span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="plaintext">Format: http<span class="idiff left right">s</span>://www.debian.org/doc/packaging-manuals/copyright-format/1.0/</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">Upstream-Name: TM-align</span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="plaintext">Upstream-Contact: Yang Zhang <zhng@umich.edu></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext">Source: http://zhanglab.ccmb.med.umich.edu/TM-align/</span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -7,11 +7,11 @@ Files-Excluded: TMalign TMscore</td>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">Files: *</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext">Copyright: © 2005-2012 Yang Zhang, Jeffrey Skolnick</span>
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<pre style="margin: 0;"> <span id="LC9" class="line" lang="plaintext">License: other</span>
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<pre style="margin: 0;">-<span id="LC10" class="line" lang="plaintext"> Permission to use, copy, modify, and distribute this program for<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC10" class="line" lang="plaintext"> Permission to use, copy, modify, and distribute this program for</span>
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<pre style="margin: 0;"> <span id="LC11" class="line" lang="plaintext"> any purpose, with or without fee, is hereby granted, provided that</span>
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<pre style="margin: 0;"> <span id="LC12" class="line" lang="plaintext"> the notices on the head, the reference information, and this</span>
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<pre style="margin: 0;">-<span id="LC13" class="line" lang="plaintext"> copyright notice appear in all copies or substantial portions of<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">-<span id="LC14" class="line" lang="plaintext"> the Software. It is provided "as is" without express or implied<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC13" class="line" lang="plaintext"> copyright notice appear in all copies or substantial portions of</span>
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<pre style="margin: 0;">+<span id="LC14" class="line" lang="plaintext"> the Software. It is provided "as is" without express or implied</span>
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<pre style="margin: 0;"> <span id="LC15" class="line" lang="plaintext"> warranty.</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC17" class="line" lang="plaintext">Files: debian/*</span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -36,13 +36,13 @@ Comment: full protein structure in PDB format from RCSB PDB database, gzipped</td>
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<pre style="margin: 0;"> <span id="LC36" class="line" lang="plaintext">License: PDB</span>
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<pre style="margin: 0;"> <span id="LC37" class="line" lang="plaintext"> PDB File License - as described in RCSB PDB site - June 17, 2016</span>
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<pre style="margin: 0;"> <span id="LC38" class="line" lang="plaintext"> .</span>
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<pre style="margin: 0;">-<span id="LC39" class="line" lang="plaintext"> Data files contained in the PDB archive (ftp://ftp.wwpdb.org) are free of all<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">-<span id="LC40" class="line" lang="plaintext"> copyright restrictions and made fully and freely available for both<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">-<span id="LC41" class="line" lang="plaintext"> non-commercial and commercial use. Users of the data should attribute the<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">-<span id="LC42" class="line" lang="plaintext"> original authors of that structural data. By using the materials available in<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">-<span id="LC43" class="line" lang="plaintext"> the PDB archive, the user agrees to abide by the conditions described in the<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="plaintext"> Data files contained in the PDB archive (ftp://ftp.wwpdb.org) are free of all</span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="plaintext"> copyright restrictions and made fully and freely available for both</span>
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<pre style="margin: 0;">+<span id="LC41" class="line" lang="plaintext"> non-commercial and commercial use. Users of the data should attribute the</span>
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<pre style="margin: 0;">+<span id="LC42" class="line" lang="plaintext"> original authors of that structural data. By using the materials available in</span>
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<pre style="margin: 0;">+<span id="LC43" class="line" lang="plaintext"> the PDB archive, the user agrees to abide by the conditions described in the</span>
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<pre style="margin: 0;"> <span id="LC44" class="line" lang="plaintext"> PDB Advisory Notice (http://www.rcsb.org/pdb/static.do?p=general_information/about_pdb/pdb_advisory.html).</span>
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<pre style="margin: 0;"> <span id="LC45" class="line" lang="plaintext"> .</span>
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<pre style="margin: 0;">-<span id="LC46" class="line" lang="plaintext"> License's text is available on RCSB PDB database site (http://www.rcsb.org), on page named<span class="idiff left right"> </span></span>
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<pre style="margin: 0;">+<span id="LC46" class="line" lang="plaintext"> License's text is available on RCSB PDB database site (http://www.rcsb.org), on page named</span>
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<pre style="margin: 0;"> <span id="LC47" class="line" lang="plaintext"> "RCSB PDB Policies & References".</span>
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<pre style="margin: 0;"> <span id="LC48" class="line" lang="plaintext"> URL: http://www.rcsb.org/pdb/static.do?p=general_information/about_pdb/policies_references.html</span></pre>
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