# HG changeset patch # User lecorguille # Date 1458678067 14400 # Node ID 0692b03eeddc425cc807658f3375028a09700430 # Parent fdc068daa4a85ab862910df8ebd95a3b9b5cd9a7 planemo upload commit ac2bc76f498db6c51cb451b5e3a37640b35009fc-dirty diff -r fdc068daa4a8 -r 0692b03eeddc abims_xcms_summary.xml --- a/abims_xcms_summary.xml Sat Feb 20 05:15:38 2016 -0500 +++ b/abims_xcms_summary.xml Tue Mar 22 16:21:07 2016 -0400 @@ -34,8 +34,8 @@ - - + + diff -r fdc068daa4a8 -r 0692b03eeddc repository_dependencies.xml --- a/repository_dependencies.xml Sat Feb 20 05:15:38 2016 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,5 +0,0 @@ - - - - - diff -r fdc068daa4a8 -r 0692b03eeddc test-data/report.html --- a/test-data/report.html Sat Feb 20 05:15:38 2016 -0500 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,74 +0,0 @@ - - - - -[W4M] XCMS analysis summary - - - -

___ XCMS analysis summary using Workflow4Metabolomics ___

-

Samples used:

- - -
samplefilename
HU_neg_051 sacuri//bio2/HU_neg_051.mzXML
HU_neg_060 sacuri//bio2/HU_neg_060.mzXML
HU_neg_017 sacuri//bio/HU_neg_017.mzXML
HU_neg_028 sacuri//bio/HU_neg_028.mzXML
Blanc04 sacuri//blank/Blanc04.mzXML
Blanc06 sacuri//blank/Blanc06.mzXML
-

Function launched:

- - - - - - - - - - - - - - - -
timestamp
(ymd-h:m:s)
functionargumentvalue
151221-16:20:54xcmsSetnSlaves1
methodmatchedFilter
step0.01
fwhm30
151221-16:37:00groupmethoddensity
sleep0.001
minfrac0.5
bw30
mzwid0.25
151221-16:37:20fillPeaksmethodchrom
-

Information about the xcmsSet object:

-
-An "xcmsSet" object with 6 samples
-
-Time range: 16.3-1138.9 seconds (0.3-19 minutes)
-Mass range: 61.9883-481.2446 m/z
-Peaks: 1799 (about 300 per sample)
-Peak Groups: 289 
-Sample classes: bio, bio2, blank 
-
-Profile settings: method = bin
-                  step = 0.01
-
-Memory usage: 0.421 MB
-
-

Citations:

- - - diff -r fdc068daa4a8 -r 0692b03eeddc test-data/summary.html --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/test-data/summary.html Tue Mar 22 16:21:07 2016 -0400 @@ -0,0 +1,79 @@ + + + + +[W4M] XCMS analysis summary + + + +

___ XCMS analysis summary using Workflow4Metabolomics ___

+
+

Samples used:

+
+ + +
samplefilename
HU_neg_051 sacuri//bio2/HU_neg_051.mzXML
HU_neg_060 sacuri//bio2/HU_neg_060.mzXML
HU_neg_017 sacuri//bio/HU_neg_017.mzXML
HU_neg_028 sacuri//bio/HU_neg_028.mzXML
Blanc04 sacuri//blank/Blanc04.mzXML
Blanc06 sacuri//blank/Blanc06.mzXML
+ +
+

Function launched:

+
+ + + + + + + + + + + + + + +
timestamp***functionargumentvalue
151221-16:20:54xcmsSetnSlaves1
methodmatchedFilter
step0.01
fwhm30
151221-16:37:00groupmethoddensity
sleep0.001
minfrac0.5
bw30
mzwid0.25
151221-16:37:20fillPeaksmethodchrom
+
***timestamp format: yymmdd-hh:mm:ss +
+

Informations about the xcmsSet object:

+
+An "xcmsSet" object with 6 samples
+
+Time range: 16.3-1138.9 seconds (0.3-19 minutes)
+Mass range: 61.9883-481.2446 m/z
+Peaks: 1799 (about 300 per sample)
+Peak Groups: 289 
+Sample classes: bio, bio2, blank 
+
+Profile settings: method = bin
+                  step = 0.01
+
+Memory usage: 0.421 MB
+
+

Citations:

+
+ + diff -r fdc068daa4a8 -r 0692b03eeddc xcms_summary.r --- a/xcms_summary.r Sat Feb 20 05:15:38 2016 -0500 +++ b/xcms_summary.r Tue Mar 22 16:21:07 2016 -0400 @@ -139,7 +139,7 @@ writehtml("

Informations about the CAMERA object:

") writehtml("
") - writehtml("Number of pcgroup:",length(xa@pspectra)) + writehtml("Number of pcgroup: ",length(xa@pspectra)) writehtml("
") } diff -r fdc068daa4a8 -r 0692b03eeddc xcms_summary.tgz Binary file xcms_summary.tgz has changed