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<p class="MsoNormal"><span style="font-size:11.0pt">Sorry, this got delayed a bit but I just pushed out a new Bio::DB::SeqFeature release, v 1.7.5. Let me know if you have any issues with it!<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt"><o:p> </o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt">chris<o:p></o:p></span></p>
<p class="MsoNormal"><span style="font-size:11.0pt"><o:p> </o:p></span></p>
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<p class="MsoNormal" style="margin-bottom:12.0pt"><b><span style="font-size:12.0pt;color:black">From:
</span></b><span style="font-size:12.0pt;color:black">Schlachter, Kai <kai.schlachter@dkfz-heidelberg.de><br>
<b>Date: </b>Wednesday, September 18, 2024 at 8:01</span><span style="font-size:12.0pt;font-family:"Arial",sans-serif;color:black"> </span><span style="font-size:12.0pt;color:black">AM<br>
<b>To: </b>Fields, Christopher J <cjfields@illinois.edu><br>
<b>Cc: </b>bioperl-l@bioperl.org <bioperl-l@bioperl.org><br>
<b>Subject: </b>AW: [Bioperl-l] [Extern] - Re: Support for MariaDB in Bio::DB:SeqFeature:Store::DBI::<o:p></o:p></span></p>
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<p><span style="font-family:"Calibri",sans-serif;color:black">Hi Chris,<o:p></o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black"><o:p> </o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black">This is great news und will facilitate our container building process.<o:p></o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black"><o:p> </o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black">I also hope this enables many projects to use the most recent tech stack on debian based distributions (many projects I got involved were using CentOS and now found themselves in a bad position as
the support ended in June this year).<o:p></o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black"><o:p> </o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black">Greetings,<o:p></o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black"><o:p> </o:p></span></p>
<p><span style="font-family:"Calibri",sans-serif;color:black">Kai<o:p></o:p></span></p>
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<p class="MsoNormal"><b><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:black">Von:</span></b><span style="font-size:11.0pt;font-family:"Calibri",sans-serif;color:black"> Fields, Christopher J <cjfields@illinois.edu><br>
<b>Gesendet:</b> Mittwoch, 18. September 2024 14:51:11<br>
<b>An:</b> Schlachter, Kai<br>
<b>Cc:</b> bioperl-l@bioperl.org<br>
<b>Betreff:</b> Re: [Bioperl-l] [Extern] - Re: Support for MariaDB in Bio::DB:SeqFeature:Store::DBI::</span>
<o:p></o:p></p>
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<p class="MsoNormal"> <o:p></o:p></p>
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<p class="MsoNormal">Thanks Kai. I merged that request and will work on a new point release for CPAN
<o:p></o:p></p>
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<p class="MsoNormal"><o:p> </o:p></p>
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<p class="MsoNormal">Chris <o:p></o:p></p>
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<p class="MsoNormal" style="margin-bottom:12.0pt">On Sep 5, 2024, at 6:35<span style="font-family:"Arial",sans-serif"> </span>AM, Schlachter, Kai <kai.schlachter@dkfz-heidelberg.de> wrote:<o:p></o:p></p>
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<p class="MsoNormal"><span style="font-family:"Calibri",sans-serif"></span> <span style="font-size:12.0pt">
<o:p></o:p></span></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif">Hi,</span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif"> </span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif">just to give you an update:</span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif">For the purpose I needed it, I was able to change the files to use MariaDB.</span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif">See the following pull request:</span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif"><a href="https://urldefense.com/v3/__https:/github.com/bioperl/Bio-DB-SeqFeature/pull/4__;!!DZ3fjg!-QX_z6zzyv4Wfl0sG0ILBNkvGSm0XUsW1FwDZtQGbo18vGmLvLHiaY8DSClaWt0ttUvPazvFJM6IIp84XoVjwj8TbAEBSQmWT7-Shxc$">https://github.com/bioperl/Bio-DB-SeqFeature/pull/4</a></span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif"> </span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif">Greetings,</span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif">Kai Schlachter</span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif"> </span><o:p></o:p></p>
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<p class="MsoNormal"><b><span style="font-size:12.0pt;font-family:"Calibri",sans-serif;color:black">Von:
</span></b><span style="font-size:12.0pt;font-family:"Calibri",sans-serif;color:black">Bioperl-l <bioperl-l-bounces@bioperl.org> im Auftrag von "Schlachter, Kai" <kai.schlachter@dkfz-heidelberg.de><br>
<b>Datum: </b>Mittwoch, 4. September 2024 um 14:44<br>
<b>An: </b>"bioperl-l@bioperl.org" <bioperl-l@bioperl.org><br>
<b>Betreff: </b>Re: [Bioperl-l] [Extern] - Re: Support for MariaDB in Bio::DB:SeqFeature:Store::DBI::</span><o:p></o:p></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif"> </span><o:p></o:p></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif">Hi,</span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif"> </span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif">So I did my first steps towards creating a perl module although I am not a perl expert.</span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif">I also created a pull request to add MariaDB-Support to the project.</span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif">I did not find any test specifications, so I left those out of scope for the moment.</span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif"> </span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif">I will also try to see what happens if I add the module manually to our containers as long as it is not included in CPAN.</span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif"> </span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif">Greetings,</span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif"> </span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif">Kai Schlachter</span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif"> </span><o:p></o:p></p>
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<p class="MsoNormal"><b><span style="font-size:12.0pt;font-family:"Calibri",sans-serif;color:black">Von:
</span></b><span style="font-size:12.0pt;font-family:"Calibri",sans-serif;color:black">Bioperl-l <bioperl-l-bounces@bioperl.org> im Auftrag von "Fields, Christopher J" <cjfields@illinois.edu><br>
<b>Datum: </b>Mittwoch, 4. September 2024 um 00:02<br>
<b>An: </b>Timothy Parnell <timothy.parnell@hci.utah.edu>, "bioperl-l@bioperl.org" <bioperl-l@bioperl.org><br>
<b>Betreff: </b>[Extern] - Re: [Bioperl-l] Support for MariaDB in Bio::DB:SeqFeature:Store::DBI::</span><o:p></o:p></p>
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<p class="MsoNormal"><span style="font-size:11.0pt;font-family:"Calibri",sans-serif"> </span><o:p></o:p></p>
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<p class="MsoNormal"><span style="font-size:11.0pt">I agree, this should be a simple way to get it going, and though it would likely result in code duplication it could eventually require settings specific to MariaDB (though as Tim mentioned it’s essentially
a drop in replacement).</span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt"> </span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt">Kai, if you want to make a fork and then submit a pull request, I’m more than happy to test and add this to a new release. One thing that would be beneficial is if you can get some basic tests running for
it; IIRC this is a bit hacked in for the various DBI plugin modules.</span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt"> </span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt">chris</span><o:p></o:p></p>
<p class="MsoNormal"><span style="font-size:11.0pt"> </span><o:p></o:p></p>
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<p class="MsoNormal"><span style="font-size:12.0pt">_______________________________________________<br>
Bioperl-l mailing list<br>
Bioperl-l@bioperl.org<br>
https://urldefense.com/v3/__https://mailman.open-bio.org/mailman/listinfo/bioperl-l__;!!DZ3fjg!-QX_z6zzyv4Wfl0sG0ILBNkvGSm0XUsW1FwDZtQGbo18vGmLvLHiaY8DSClaWt0ttUvPazvFJM6IIp84XoVjwj8TbAEBSQmWZkFO2nI$
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