Mercurial > repos > jcb-mpl > eics_compression
changeset 6:d5bbd682ba77 draft default tip
Deleted selected files
| author | jcb-mpl |
|---|---|
| date | Thu, 12 May 2022 12:12:51 +0000 |
| parents | 6e260ccff3d8 |
| children | |
| files | 2018_07_compression.xml |
| diffstat | 1 files changed, 0 insertions(+), 134 deletions(-) [+] |
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--- a/2018_07_compression.xml Thu May 12 12:12:43 2022 +0000 +++ /dev/null Thu Jan 01 00:00:00 1970 +0000 @@ -1,134 +0,0 @@ -<tool id="2021_05_mz_1_k_compression" name="centroid MS data -> compression" version="0.0.1"> - <description> by a factor k </description> - - - <requirements> - <requirement type="package" version="6.0.2">scilab</requirement> - </requirements> - - - <stdio> - <exit_code range="1:" level="fatal" /> - </stdio> - - - <command> <![CDATA[ - if [ -d $__root_dir__/packages/scilab-6.1.0 ]; then $__root_dir__/packages/scilab-6.1.0/bin/scilab-cli -nb -quit -f $* < ${script_file}; else scilab-cli -nb -quit -f $* < ${script_file}; fi -]]> - </command> - - - <configfiles> - <configfile name="script_file"> - <![CDATA[ exec("$__tool_directory__/src/mz_1_out_of_k.sci",-1); ... - exec("$__tool_directory__/src/mz_1_merge_by_k.sci",-1); ... - lasterror(); ... - k=${k}; ... - option=${option}; ... - load("${resbary_in}"); ... // the variable name must be resbary - if option==1 then ... - resbary_out=mz_1_out_of_k(resbary,k); ... - else ... - resbary_out=mz_1_merge_by_k(resbary,k); ... - end; ... - if ~isdef('resbary_out') then ... - disp('resbary_out is not defined'); ... - end; ... - resbary=resbary_out; ... // the variable name must be resbary - save("${resbary_out}",'resbary'); ... - if ~isempty(lasterror(%f)) then ... - write(0,lasterror()); ... - end; ]]> - </configfile> - </configfiles> - - - <inputs> - <param name="resbary_in" format="mat" type="data" label="MS-centroid" help="contains the fields .time et .mzdata" /> - <param name="k" value="1" type="integer" min="1" max="100" label="k" help="a number of RTs" /> - <param name="option" value="2" type="integer" min="1" max="2" label="option" help="1= 1 out of k RT; 2= mean of k RT" /> -</inputs> - - <outputs> - <data name="resbary_out" format="mat" label="MS-compressed" /> - </outputs> - - - <tests> - - <test> - <param name="resbary_in" value="VI2016_AC_4Areduit_1centroide.mat"/> - <param name="k" value="3"/> - <param name="option" value="1"/> - <output name="resbary_out" file="VI2016_AC_4Acentroide-1_k1outof3.mat" compare="sim_size" delta="1000" /> - </test> - - <test> - <param name="resbary_in" value="VI2016_AC_4Areduit_1centroide.mat"/> - <param name="k" value="3"/> - <param name="option" value="2"/> - <output name="resbary_out" file="VI2016_AC_4Acentroide-1_k_3mean.mat" compare="sim_size" delta="1000" /> - </test> - - - - </tests> - - - -<help> - - -**Authors** Jean-Claude Boulet (INRAE). - - ---------------------------------------------------- - -================================= -COMPRESSION OF A CENTROID MS DATA -================================= - - ------------ -Description ------------ - -This function reduces by a factor k the number of RTs and associated mass spectra. - - ------ -Input ------ - -**centroid MS data** - -A centroid MS data, at the HDF5-scilab format. - -**k** - -The compression factor. - -**option** - -- 1: selects one out of k RTs and associated ms. - -- 2: merges by k the RTs and associated ms - - -------- -Outputs -------- - -**compressed MS data** - -A centroid MS data, similar to the input, but with k times less RTs and ms. - -</help> - - -<citations> - -</citations> - - -</tool>