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Datatype I/O fixes #7995
Merged
jmchilton
merged 14 commits into
galaxyproject:dev
from
mvdbeek:jmchilton-newline_fixes
May 17, 2019
Merged
Datatype I/O fixes #7995
jmchilton
merged 14 commits into
galaxyproject:dev
from
mvdbeek:jmchilton-newline_fixes
May 17, 2019
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Behavior changes: - Now includes a trailing new line if the input contained a trailing newline. - Now returns only as many lines as are present if the file contains fewer lines than LINE_COUNT.
- Fix bug where sep2tabs didn't work with '\r\n' - Fix bug where sep2tabs didn't work with '\r' - we were opening it with universal newlines. - Fix memory bug where convert_newlines would read unbounded buffers - other methods still do though :(. - Simplify convert_newlines to just let universal newline handling handle the conversion.
This is amazing @mvdbeek - thanks for saving me from this, I was really getting lost in the weeds and everything here looks amazing now. |
mvdbeek
commented
May 17, 2019
Just call convert_newlines with a compiled regex
I'm going to backport all of this to 19.05, some of it (e.g. ed24664 probably should go back to 19.01 also). |
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jmchilton
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May 19, 2019
[19.05] Add missing commits from #7995 backport
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trying a different newline replacement strategy and paramterizing unit test