Mercurial > repos > tduigou > get_sbml_model

annotate get_sbml_model.xml @ 13:6bcd8f09158d draft default tip

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
author tduigou
date Tue, 01 Apr 2025 10:00:36 +0000
parents 1aadcfdae10b
children
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
13
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
1 <tool id="get_sbml_model" name="Pick SBML Model" version="0.4.0" profile="21.09" license="MIT">
1
ceffb29b60c9 planemo upload commit 9c19f737cd6e2152151c8bf97a53ab1afe51a4a0
tduigou
parents: 0
diff changeset
2 <description>Get an SBML model (BiGG)</description>
0
4797d0b36ff3 "planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
tduigou
parents:
diff changeset
3 <requirements>
4797d0b36ff3 "planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
tduigou
parents:
diff changeset
4 <requirement type="package" version="7.81.0">curl</requirement>
4797d0b36ff3 "planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
tduigou
parents:
diff changeset
5 <requirement type="package" version="1.11">gzip</requirement>
1
ceffb29b60c9 planemo upload commit 9c19f737cd6e2152151c8bf97a53ab1afe51a4a0
tduigou
parents: 0
diff changeset
6 <requirement type="package" version="5.19.2">python-libsbml</requirement>
13
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
7 <requirement type="package" version="2.31">requests</requirement>
9
6a2871e89352 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 537d7fefe58984b8f7ca66010153a2fdc35ddf4b
tduigou
parents: 8
diff changeset
8 <requirement type="package" version="0.1.1">taxonid</requirement>
0
4797d0b36ff3 "planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
tduigou
parents:
diff changeset
9 </requirements>
4797d0b36ff3 "planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
tduigou
parents:
diff changeset
10 <command detect_errors="exit_code"><![CDATA[
10
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
11 #import re
6
9b5947d48192 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 87a863d4074543870caef1116b8e9be58005dcdd
tduigou
parents: 5
diff changeset
12 #if str($cond_src.from_src) == 'from_bigg'
13
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
13 curl -o - 'http://bigg.ucsd.edu/static/models/${cond_src.hostid}.xml.gz' | gunzip > '$model' &&
10
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
14 #else
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
15 #set model=$cond_src.input_file
6
9b5947d48192 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 87a863d4074543870caef1116b8e9be58005dcdd
tduigou
parents: 5
diff changeset
16 #end if
4
1482291aaa5c planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 4a0b08beb8cdf51ab295a1f5f8c586d6bbaf5586
tduigou
parents: 3
diff changeset
17 python '$__tool_directory__/'get_infos.py
10
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
18 '$model'
13
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
19 #if str($cond_src.from_src) == 'from_bigg'
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
20 --taxonid-outfile '$taxid_bigg'
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
21 --compartments-outfile '$compartments_bigg'
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
22 --biomassid-outfile '$biomass_bigg'
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
23 #else
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
24 --biomassid '$cond_src.adv.biomassid'
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
25 --taxonid '$cond_src.adv.taxonid'
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
26 $cond_src.adv.standalone
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
27 --taxonid-outfile '$taxid_history'
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
28 --compartments-outfile '$compartments_history'
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
29 --biomassid-outfile '$biomass_history'
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
30 #end if
0
4797d0b36ff3 "planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
tduigou
parents:
diff changeset
31 ]]></command>
4797d0b36ff3 "planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
tduigou
parents:
diff changeset
32 <inputs>
6
9b5947d48192 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 87a863d4074543870caef1116b8e9be58005dcdd
tduigou
parents: 5
diff changeset
33 <conditional name="cond_src">
9b5947d48192 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 87a863d4074543870caef1116b8e9be58005dcdd
tduigou
parents: 5
diff changeset
34 <param name="from_src" type="select" label="Select source">
9b5947d48192 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 87a863d4074543870caef1116b8e9be58005dcdd
tduigou
parents: 5
diff changeset
35 <option value="from_bigg" selected="True">Download model from BiGG</option>
9b5947d48192 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 87a863d4074543870caef1116b8e9be58005dcdd
tduigou
parents: 5
diff changeset
36 <option value="from_history">Select file from the History</option>
9b5947d48192 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 87a863d4074543870caef1116b8e9be58005dcdd
tduigou
parents: 5
diff changeset
37 </param>
9b5947d48192 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 87a863d4074543870caef1116b8e9be58005dcdd
tduigou
parents: 5
diff changeset
38 <when value="from_history">
9b5947d48192 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 87a863d4074543870caef1116b8e9be58005dcdd
tduigou
parents: 5
diff changeset
39 <param name="input_file" type="data" format="sbml,xml" label="SBML model" help="An SBML file is expected"/>
13
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
40 <section name="adv" title="Advanced Options" expanded="false">
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
41 <param name="biomassid" type="text" label="Biomass reaction ID" help="Biomass reaction ID" optional="True"/>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
42 <param name="taxonid" type="text" label="Taxonomy ID" help="Taxonomy ID" optional="True"/>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
43 <param argument="--standalone" type="boolean" truevalue="--standalone" falsevalue="" checked="false" label="Standalone mode" help="If true, do not retrieve taxonomy ID from Internet" />
10
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
44 </section>
6
9b5947d48192 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 87a863d4074543870caef1116b8e9be58005dcdd
tduigou
parents: 5
diff changeset
45 </when>
9b5947d48192 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 87a863d4074543870caef1116b8e9be58005dcdd
tduigou
parents: 5
diff changeset
46 <when value="from_bigg">
13
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
47 <param name="hostid" type="select" label="Strain">
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
48 <!-- Be careful, the text name is used for the hostname variable -->
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
49 <option value="iCN718">Acinetobacter baumannii AYE (iCN718)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
50 <option value="iYO844">Bacillus subtilis subsp. subtilis str. 168 (iYO844)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
51 <option value="iRC1080">Chlamydomonas reinhardtii (iRC1080)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
52 <option value="iCN900">Clostridioides difficile 630 (iCN900)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
53 <option value="iHN637">Clostridium ljungdahlii DSM 13528 (iHN637)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
54 <option value="iCHOv1_DG44">Cricetulus griseus (iCHOv1_DG44)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
55 <option value="iCHOv1">Cricetulus griseus (iCHOv1)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
56 <option value="iAF1260b">Escherichia coli str. K-12 substr. MG1655 (iAF1260b)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
57 <option value="iAF1260">Escherichia coli str. K-12 substr. MG1655 (iAF1260)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
58 <option value="iML1515" selected="true">Escherichia coli str. K-12 substr. MG1655 (iML1515)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
59 <option value="iJO1366">Escherichia coli str. K-12 substr. MG1655 (iJO1366)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
60 <option value="iJR904">Escherichia coli str. K-12 substr. MG1655 (iJR904)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
61 <option value="e_coli_core">Escherichia coli str. K-12 substr. MG1655 (e_coli_core)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
62 <option value="iAF987">Geobacter metallireducens GS-15 (iAF987)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
63 <option value="iIT341">Helicobacter pylori 26695 (iIT341)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
64 <option value="iAT_PLT_636">Homo sapiens (iAT_PLT_636)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
65 <option value="Recon3D">Homo sapiens (Recon3D)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
66 <option value="iAB_RBC_283">Homo sapiens (iAB_RBC_283)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
67 <option value="RECON1">Homo sapiens (RECON1)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
68 <option value="iYL1228">Klebsiella pneumoniae subsp. pneumoniae MGH 78578 (iYL1228)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
69 <option value="iNF517">Lactococcus lactis subsp. cremoris MG1363 (iNF517)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
70 <option value="iAF692">Methanosarcina barkeri str. Fusaro (iAF692)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
71 <option value="iMM1415">Mus musculus (iMM1415)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
72 <option value="iNJ661">Mycobacterium tuberculosis H37Rv (iNJ661)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
73 <option value="iEK1008">Mycobacterium tuberculosis H37Rv (iEK1008)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
74 <option value="iLB1027_lipid">Phaeodactylum tricornutum CCAP 1055/1 (iLB1027_lipid)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
75 <option value="iAM_Pb448">Plasmodium berghei (iAM_Pb448)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
76 <option value="iAM_Pc455">Plasmodium cynomolgi strain B (iAM_Pc455)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
77 <option value="iAM_Pf480">Plasmodium falciparum 3D7 (iAM_Pf480)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
78 <option value="iAM_Pk459">Plasmodium knowlesi strain H (iAM_Pk459)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
79 <option value="iAM_Pv461">Plasmodium vivax Sal-1 (iAM_Pv461)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
80 <option value="iJN746">Pseudomonas putida KT2440 (iJN746)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
81 <option value="iJN1463">Pseudomonas putida KT2440 (iJN1463)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
82 <option value="iND750">Saccharomyces cerevisiae S288C (iND750)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
83 <option value="iMM904">Saccharomyces cerevisiae S288C (iMM904)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
84 <option value="STM_v1_0">Salmonella enterica subsp. enterica serovar Typhimurium str. LT2 (STM_v1_0)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
85 <option value="iYS1720">Salmonella pan-reactome (iYS1720)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
86 <option value="iSB619">Staphylococcus aureus subsp. aureus N315 (iSB619)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
87 <option value="iYS854">Staphylococcus aureus subsp. aureus USA300_TCH1516 (iYS854)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
88 <option value="iJB785">Synechococcus elongatus PCC 7942 (iJB785)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
89 <option value="iJN678">Synechocystis sp. PCC 6803 (iJN678)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
90 <option value="iSynCJ816">Synechocystis sp. PCC 6803 (iSynCJ816)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
91 <option value="iLJ478">Thermotoga maritima MSB8 (iLJ478)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
92 <option value="iIS312">Trypanosoma cruzi Dm28c (iIS312)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
93 <option value="iIS312_Trypomastigote">Trypanosoma cruzi Dm28c (iIS312_Trypomastigote)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
94 <option value="iIS312_Epimastigote">Trypanosoma cruzi Dm28c (iIS312_Epimastigote)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
95 <option value="iIS312_Amastigote">Trypanosoma cruzi Dm28c (iIS312_Amastigote)</option>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
96 </param>
6
9b5947d48192 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 87a863d4074543870caef1116b8e9be58005dcdd
tduigou
parents: 5
diff changeset
97 </when>
9b5947d48192 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 87a863d4074543870caef1116b8e9be58005dcdd
tduigou
parents: 5
diff changeset
98 </conditional>
0
4797d0b36ff3 "planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
tduigou
parents:
diff changeset
99 </inputs>
4797d0b36ff3 "planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
tduigou
parents:
diff changeset
100 <outputs>
13
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
101 <data name="model" format="sbml" label="${cond_src.hostid}">
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
102 <filter>cond_src['from_src'] == 'from_bigg'</filter>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
103 </data>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
104 <data name="taxid_bigg" format="tsv" label="${cond_src.hostid} (taxon id)">
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
105 <filter>cond_src['from_src'] == 'from_bigg'</filter>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
106 </data>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
107 <data name="compartments_bigg" format="tsv" label="${cond_src.hostid} (compartments)">
7
8dc4d3964ab5 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 09fcdb371be214b222a2e1c540d7c6e7489ca258
tduigou
parents: 6
diff changeset
108 <filter>cond_src['from_src'] == 'from_bigg'</filter>
8dc4d3964ab5 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 09fcdb371be214b222a2e1c540d7c6e7489ca258
tduigou
parents: 6
diff changeset
109 </data>
13
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
110 <data name="biomass_bigg" format="tsv" label="${cond_src.hostid} (biomass reactions)">
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
111 <filter>cond_src['from_src'] == 'from_bigg'</filter>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
112 </data>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
113 <data name="taxid_history" format="tsv" label="${cond_src.input_file.name} (taxon id)">
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
114 <filter>cond_src['from_src'] == 'from_history'</filter>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
115 </data>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
116 <data name="compartments_history" format="tsv" label="${cond_src.input_file.name} (compartments)">
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
117 <filter>cond_src['from_src'] == 'from_history'</filter>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
118 </data>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
119 <data name="biomass_history" format="tsv" label="${cond_src.input_file.name} (biomass reactions)">
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
120 <filter>cond_src['from_src'] == 'from_history'</filter>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
121 </data>
0
4797d0b36ff3 "planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
tduigou
parents:
diff changeset
122 </outputs>
4797d0b36ff3 "planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
tduigou
parents:
diff changeset
123 <tests>
10
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
124 <test expect_num_outputs="4">
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
125 <conditional name="cond_src">
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
126 <param name="from_src" value="from_bigg" />
13
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
127 <param name="hostid" value="iML1515" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
128 </conditional>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
129 <output name="model" md5="9bf81d20cab5476700697ded95b716d1" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
130 <output name="taxid_bigg" md5="6b35ad8a1c2b640af4ba738c2f5f876e" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
131 <output name="compartments_bigg" md5="e93a875a2d8efc10a880ae3ac0018236" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
132 <output name="biomass_bigg" md5="95c0255bd5dd8753c6dde53c0f2958ea" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
133 </test>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
134 <test expect_num_outputs="3">
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
135 <conditional name="cond_src">
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
136 <param name="from_src" value="from_history" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
137 <param name="input_file" value="e_coli_core.xml" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
138 </conditional>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
139 <output name="taxid_history" md5="6b35ad8a1c2b640af4ba738c2f5f876e" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
140 <output name="compartments_history" md5="71dc18974a12e9bb75bb2c4cffd13edf" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
141 <output name="biomass_history" md5="d10baa335181450c7bffa9b4ca01754a" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
142 </test>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
143 <test expect_num_outputs="3">
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
144 <conditional name="cond_src">
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
145 <param name="from_src" value="from_history" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
146 <param name="input_file" value="e_coli_core.xml" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
147 <section name="adv">
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
148 <param name="standalone" value="true" />
12
1aadcfdae10b planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 11
diff changeset
149 </section>
11
062f51695ae0 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 10
diff changeset
150 </conditional>
13
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
151 <output name="taxid_history" md5="b4f2c5588318a1043520ef77c1db9865" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
152 <output name="compartments_history" md5="71dc18974a12e9bb75bb2c4cffd13edf" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
153 <output name="biomass_history" md5="d10baa335181450c7bffa9b4ca01754a" />
0
4797d0b36ff3 "planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
tduigou
parents:
diff changeset
154 </test>
10
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
155 <test expect_num_outputs="3">
6
9b5947d48192 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 87a863d4074543870caef1116b8e9be58005dcdd
tduigou
parents: 5
diff changeset
156 <conditional name="cond_src">
9b5947d48192 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 87a863d4074543870caef1116b8e9be58005dcdd
tduigou
parents: 5
diff changeset
157 <param name="from_src" value="from_history" />
13
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
158 <param name="input_file" value="e_coli_core.xml" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
159 <section name="adv">
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
160 <param name="taxonid" value="511145" />
10
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
161 </section>
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
162 </conditional>
13
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
163 <output name="taxid_history" md5="6b35ad8a1c2b640af4ba738c2f5f876e" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
164 <output name="compartments_history" md5="71dc18974a12e9bb75bb2c4cffd13edf" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
165 <output name="biomass_history" md5="d10baa335181450c7bffa9b4ca01754a" />
10
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
166 </test>
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
167 <test expect_num_outputs="3">
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
168 <conditional name="cond_src">
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
169 <param name="from_src" value="from_history" />
13
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
170 <param name="input_file" value="e_coli_core.xml" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
171 <section name="adv">
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
172 <param name="taxonid" value="83333" />
10
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
173 </section>
6
9b5947d48192 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 87a863d4074543870caef1116b8e9be58005dcdd
tduigou
parents: 5
diff changeset
174 </conditional>
13
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
175 <output name="taxid_history" md5="ec29688652dd49becf7be2a6c2469287" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
176 <output name="compartments_history" md5="71dc18974a12e9bb75bb2c4cffd13edf" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
177 <output name="biomass_history" md5="d10baa335181450c7bffa9b4ca01754a" />
10
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
178 </test>
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
179 <test expect_num_outputs="3">
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
180 <conditional name="cond_src">
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
181 <param name="from_src" value="from_history" />
13
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
182 <param name="input_file" value="iMS570_cobra_without_constraints.xml" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
183 </conditional>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
184 <output name="taxid_history" md5="b4f2c5588318a1043520ef77c1db9865" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
185 <output name="compartments_history" md5="973d345179c06304590bf27c7774db51" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
186 <output name="biomass_history" md5="08fa413cfe0ff6439378a63395f49c0f" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
187 </test>
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
188 <test expect_num_outputs="3">
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
189 <conditional name="cond_src">
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
190 <param name="from_src" value="from_history" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
191 <param name="input_file" value="iMS570_cobra_without_constraints.xml" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
192 <section name="adv">
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
193 <param name="taxonid" value="e_coli_core" />
12
1aadcfdae10b planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 11
diff changeset
194 </section>
11
062f51695ae0 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 10
diff changeset
195 </conditional>
13
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
196 <output name="taxid_history" md5="cfc5df6325c0f6a519eded6ee975a0c3" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
197 <output name="compartments_history" md5="973d345179c06304590bf27c7774db51" />
6bcd8f09158d planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 8ab0b9452a029b409b18b80243958b4901bdeb3d
tduigou
parents: 12
diff changeset
198 <output name="biomass_history" md5="08fa413cfe0ff6439378a63395f49c0f" />
10
dc1167469d62 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 94f89a44e330ccfccc8d94b5e7acf583c9d39343
tduigou
parents: 9
diff changeset
199 </test>
0
4797d0b36ff3 "planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
tduigou
parents:
diff changeset
200 </tests>
4797d0b36ff3 "planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
tduigou
parents:
diff changeset
201 <help><![CDATA[
4797d0b36ff3 "planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
tduigou
parents:
diff changeset
202 Pick SBML Model
4797d0b36ff3 "planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
tduigou
parents:
diff changeset
203 =================
4797d0b36ff3 "planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
tduigou
parents:
diff changeset
204
6
9b5947d48192 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 87a863d4074543870caef1116b8e9be58005dcdd
tduigou
parents: 5
diff changeset
205 Download the selected SBML model fromg BiGG database or get statistics from local SBML model.
0
4797d0b36ff3 "planemo upload commit 2f1af427fa4c4f2aad53ab94c4cdb51456c66019-dirty"
tduigou
parents:
diff changeset
206 ]]></help>
1
ceffb29b60c9 planemo upload commit 9c19f737cd6e2152151c8bf97a53ab1afe51a4a0
tduigou
parents: 0
diff changeset
207 <creator>
ceffb29b60c9 planemo upload commit 9c19f737cd6e2152151c8bf97a53ab1afe51a4a0
tduigou
parents: 0
diff changeset
208 <organization name="BioRetroSynth" url="https://github.com/brsynth"/>
ceffb29b60c9 planemo upload commit 9c19f737cd6e2152151c8bf97a53ab1afe51a4a0
tduigou
parents: 0
diff changeset
209 </creator>
2
fa893f77dc22 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 18fcec17fb6415ad5a59b9bcfa853e755c768e6f
tduigou
parents: 1
diff changeset
210 <citations>
fa893f77dc22 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 18fcec17fb6415ad5a59b9bcfa853e755c768e6f
tduigou
parents: 1
diff changeset
211 <citation type="bibtex">
fa893f77dc22 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 18fcec17fb6415ad5a59b9bcfa853e755c768e6f
tduigou
parents: 1
diff changeset
212 @unpublished{get_sbml_model
fa893f77dc22 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 18fcec17fb6415ad5a59b9bcfa853e755c768e6f
tduigou
parents: 1
diff changeset
213 author = {Joan Hérisson},
fa893f77dc22 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 18fcec17fb6415ad5a59b9bcfa853e755c768e6f
tduigou
parents: 1
diff changeset
214 title = {{get_sbml_model}},
fa893f77dc22 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 18fcec17fb6415ad5a59b9bcfa853e755c768e6f
tduigou
parents: 1
diff changeset
215 url = {https://github.com/brsynth/},
fa893f77dc22 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 18fcec17fb6415ad5a59b9bcfa853e755c768e6f
tduigou
parents: 1
diff changeset
216 }
fa893f77dc22 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 18fcec17fb6415ad5a59b9bcfa853e755c768e6f
tduigou
parents: 1
diff changeset
217 </citation>
fa893f77dc22 planemo upload for repository https://github.com/brsynth/synbiocad-galaxy-wrappers commit 18fcec17fb6415ad5a59b9bcfa853e755c768e6f
tduigou
parents: 1
diff changeset
218 </citations>
1
ceffb29b60c9 planemo upload commit 9c19f737cd6e2152151c8bf97a53ab1afe51a4a0
tduigou
parents: 0
diff changeset
219 </tool>