Mercurial > repos > galaxyp > cardinal_mz_images

comparison mz_images.xml @ 12:a95a82eb4d50 draft

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"planemo upload for repository https://github.com/galaxyproteomics/tools-galaxyp/tree/master/tools/cardinal commit ca7bdf2cbc8a79278c56ab6890e038710a2a9ad8"
author galaxyp
date Wed, 21 Oct 2020 22:58:11 +0000
parents 08ebd8da780c
children a2b57ea6666e
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11:daf2ee9127fd 12:a95a82eb4d50
1 <tool id="cardinal_mz_images" name="MSI mz images" version="@VERSION@.0"> 1 <tool id="cardinal_mz_images" name="MSI mz images" version="@VERSION@.1">
2 <description> 2 <description>
3 mass spectrometry imaging m/z heatmaps 3 mass spectrometry imaging m/z heatmaps
4 </description> 4 </description>
5 <macros> 5 <macros>
6 <import>macros.xml</import> 6 <import>macros.xml</import>
25 ##library(lattice) 25 ##library(lattice)
26 26
27 @READING_MSIDATA_FULLY_COMPATIBLE@ 27 @READING_MSIDATA_FULLY_COMPATIBLE@
28 28
29 @DATA_PROPERTIES@ 29 @DATA_PROPERTIES@
30
31 ##in case it exists, remove z-dimension:
32 coord(msidata)\$z <- NULL
30 33
31 ##################################### read and filter input m/z ############## 34 ##################################### read and filter input m/z ##############
32 35
33 input_list = read.delim("$calibrant_file", header = $calibrant_header, stringsAsFactors = FALSE) 36 input_list = read.delim("$calibrant_file", header = $calibrant_header, stringsAsFactors = FALSE)
34 input_list = input_list[,c($mz_column, $name_column)] 37 input_list = input_list[,c($mz_column, $name_column)]