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Minor fix to split to an arrayref not a variable, that is giving the deprecated @_ split warning in ExchangeFormatFactory.pm
diff --git a/lib/ModelSEED/MS/Factories/ExchangeFormatFactory.pm b/lib/Mod…
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The SBML output is not valid XML and breaks other SBML parsers. For example, reaction id rxn11544_c0 is 'Hydrogenobyrinate <=> Hydrogenobyrinate a,c diamide_c0' but the angle brackets are writ…
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I take it that I haven't fully understood the object definition, but when I try to do this:
```
$biochem->add("reactionSets",{id=>$temp[0],
type=>'KEGG',
…
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See recent tests:
https://travis-ci.org/#!/ModelSEED/ModelSEED/jobs/2845742
```
Global symbol "$mergeto" requires explicit package name at /home/travis/builds/ModelSEED/ModelSEED/blib/lib/ModelSEED/M…
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So, this really threw me for a while, and this is because the error message was actually wrong. I realized that I had a reaction for which there was no name available, but when running addrxntable, t…
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```
# Failed test 'require ModelSEED::MS::GapgenFormulation;'
# at t/require.t line 14.
# Tried to require 'ModelSEED::MS::GapgenFormulation'.
# Error: Global symbol "$subarray" requires …
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This one asked me to inform the author so here it is... Build.PL complains about a missing file when trying to run it:
WARNING: the following files are missing in your kit:
lib/ModelSEED/MS/E…
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This was completely random, but I tried to run a command before I had actually saved the file. Emacs will sometimes write an auto-save file to disk, you rarely see it because it disappears as soon as…
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I did an 'ms update' this morning, then deleted my existing store, then started over from scratch following the Tutorial. Everything went OK until I tried to build my model:
ms genome buildmodel ann…
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I did a `perl -d:NYTProf model runfba my_model` today because it was feeling sluggish. Turns out I'm using `JSON::PP` instead of `JSON::XS`, which accounts for a lot of the slowness...
So I stuck som…