fixes to loading config file and a few other little things#1
fixes to loading config file and a few other little things#1cboursnell wants to merge 22 commits into
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we shouldn't have a default config - there's no reason the user would have this file and we want to throw an error if they don't provide a config file
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Use 2 (not 0) spaces for indentation.
Conflicts: bin/atron lib/assemblotron.rb test/test_soap_denovo_trans.rb
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Space missing after comma.
Prefer single-quoted strings when you don't need string interpolation or special symbols.
Conflicts: bin/atron lib/assemblotron.rb
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Space missing after comma.
Prefer single-quoted strings when you don't need string interpolation or special symbols.
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Surrounding space missing for operator '+'.
Prefer single-quoted strings when you don't need string interpolation or special symbols.
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Why did you add basename? The whole point of using which is to get the full path to the executable, because backticks are unstable in whether they use the same shell as the one you're in (and therefore might have a different PATH).
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