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Galaxy wrappers for the MFAssignR functions #567

Merged
merged 39 commits into from
Aug 15, 2024
Merged

Galaxy wrappers for the MFAssignR functions #567

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fc6606f
initial commit of the noise estimation functions
KristinaGomoryova Aug 7, 2024
344abd3
wrapper for the MFAssignCHO function
KristinaGomoryova Aug 7, 2024
1289de2
wrapper for the mfassign function
KristinaGomoryova Aug 7, 2024
831a300
help section adjusted
KristinaGomoryova Aug 7, 2024
702b128
recalibration tools wrappers
KristinaGomoryova Aug 7, 2024
52cdb72
macro updated
KristinaGomoryova Aug 7, 2024
1698c28
write.table with tab as separator
KristinaGomoryova Aug 7, 2024
3f92d16
description updated
KristinaGomoryova Aug 7, 2024
46cd625
help section updated
KristinaGomoryova Aug 7, 2024
efc1467
label adjusted
KristinaGomoryova Aug 7, 2024
62d732d
macro updated
KristinaGomoryova Aug 7, 2024
c805110
input moved from macro to recallist.xml
KristinaGomoryova Aug 7, 2024
3c60aa8
series defined automatically
KristinaGomoryova Aug 7, 2024
ca48371
by ${tool.name} on ${on_string} added
KristinaGomoryova Aug 8, 2024
4890523
help text updated
KristinaGomoryova Aug 8, 2024
3903ded
inputs separated from macro
KristinaGomoryova Aug 8, 2024
1a144b8
macro updated
KristinaGomoryova Aug 8, 2024
c38ab7c
by ${tool.name} on ${on_string} added
KristinaGomoryova Aug 8, 2024
ead6bcc
help done via help.xml
KristinaGomoryova Aug 8, 2024
624badd
typo corrected
KristinaGomoryova Aug 8, 2024
de72a8b
Merge branch 'master' into mfassignr_kmdnoise
hechth Aug 8, 2024
85f3672
edam topics moved back to individual xml
KristinaGomoryova Aug 8, 2024
84cce27
edam_data removed
KristinaGomoryova Aug 8, 2024
3485968
fixed linting
hechth Aug 8, 2024
46c678e
replaced tool version with token
hechth Aug 8, 2024
b8aa695
profile="23.0" added
KristinaGomoryova Aug 8, 2024
2dbdd36
typo corrected
KristinaGomoryova Aug 8, 2024
828c48d
updated command section
hechth Aug 9, 2024
23c3773
fixed wrong script name
hechth Aug 9, 2024
5092f4b
updated default
hechth Aug 13, 2024
c825c0f
Added first section of tests
hechth Aug 15, 2024
364f430
finalized tests
hechth Aug 15, 2024
ed467af
removed file and changed check to size
hechth Aug 15, 2024
59c4d55
updated recal mzplot assertion
hechth Aug 15, 2024
bcb5b47
made testing for recallist less stringent
hechth Aug 15, 2024
485b12a
test updates for CI
hechth Aug 15, 2024
fff5199
updated test and data
hechth Aug 15, 2024
c7b13fa
updated recalibrants
hechth Aug 15, 2024
7ca71fd
Update tools/mfassignr/mfassignr_isofiltr.xml
hechth Aug 15, 2024
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2 changes: 0 additions & 2 deletions tools/mfassignr/mfassignr_recal.xml
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Original file line number Diff line number Diff line change
Expand Up @@ -85,8 +85,6 @@
<output name="MZplot">
<assert_contents>
<has_size size="91080" delta="100"/>
<has_image_width width="2100"/>
<has_image_height height="2100"/>
</assert_contents>
</output>
</test>
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2 changes: 1 addition & 1 deletion tools/mfassignr/mfassignr_recallist.xml
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Original file line number Diff line number Diff line change
Expand Up @@ -35,7 +35,7 @@
<tests>
<test>
<param name="input_file" value="mfassigncho/unambig.tabular" />
<output name="recal_series" file="recallist/recal_series.tabular" lines_diff="40"/>
<output name="recal_series" file="recallist/recal_series.tabular" lines_diff="100"/>
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</test>
</tests>
<help><![CDATA[
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