There are still two copies in central but I have synchronized the test cases and fixed the newlines per your suggestion. I imagine the easiest way to fix the fact there are two copies is just wait until they get migrated to the tool shed - it seems like progress is being made on that front very quickly lately. Thanks, -John On Thu, Nov 7, 2013 at 9:38 AM, Peter Cock <p.j.a.cock@googlemail.com> wrote:

Hi all,

There are two copies of the wiggle_to_simple tool in the main repository, and this duplication appears to have happened back in 2009.

$ grep wiggle_to_simple tool_conf.xml.sample <tool file="filters/wiggle_to_simple.xml" /> <tool file="stats/wiggle_to_simple.xml" />

$ diff tools/filters/wiggle_to_simple.py tools/stats/wiggle_to_simple.py (no changes)

$ diff -w tools/filters/wiggle_to_simple.xml tools/stats/wiggle_to_simple.xml 15,18d14 < <test> < <param name="input" value="3.wig" /> < <output name="out_file1" file="3_wig.bed"/> < </test>

The tools/filters/wiggle_to_simple.xml version has Windows newlines, and 2 tests.

The tools/stats/wiggle_to_simple.xml version has Unix newlines, but only 1 test.

I would therefore suggest merging the two (Unix newlines, both tests).

Peter ___________________________________________________________ Please keep all replies on the list by using "reply all" in your mail client. To manage your subscriptions to this and other Galaxy lists, please use the interface at: http://lists.bx.psu.edu/

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