annotate galaxy-conf/LogTransform.xml @ 13:eb53be9a09f4 draft

Uploaded
author timpalpant
date Sat, 19 May 2012 10:36:45 -0400
parents 81d5b81fb3c2
children 3e477c7e0e73
Ignore whitespace changes - Everywhere: Within whitespace: At end of lines:
rev   line source
4
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
1 <tool id="Logger" name="Log transform" version="1.0.0">
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
2 <description>a (Big)Wig file</description>
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
3 <command interpreter="sh">galaxyToolRunner.sh wigmath.LogTransform -i $input -b $base -o $output</command>
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
4 <inputs>
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
5 <param format="bigwig,wig" name="input" type="data" label="(Big)Wig file" />
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
6 <param name="base" type="integer" value="2" label="Logarithm base" />
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
7 </inputs>
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
8 <outputs>
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
9 <data format="wig" name="output" metadata_source="input" />
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
10 </outputs>
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
11 <tests>
13
eb53be9a09f4 Uploaded
timpalpant
parents: 12
diff changeset
12 <test>
eb53be9a09f4 Uploaded
timpalpant
parents: 12
diff changeset
13 <param name="input" value="wigmath1.wig"/>
4
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
14 <param name="base" value="2"/>
13
eb53be9a09f4 Uploaded
timpalpant
parents: 12
diff changeset
15 <output name="output" file="logger1.wig"/>
4
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
16 </test>
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
17 <test>
13
eb53be9a09f4 Uploaded
timpalpant
parents: 12
diff changeset
18 <param name="input" value="wigmath2.wig"/>
eb53be9a09f4 Uploaded
timpalpant
parents: 12
diff changeset
19 <param name="base" value="3"/>
eb53be9a09f4 Uploaded
timpalpant
parents: 12
diff changeset
20 <output name="output" file="logger2.wig"/>
4
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
21 </test>
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
22 <test>
13
eb53be9a09f4 Uploaded
timpalpant
parents: 12
diff changeset
23 <param name="input" value="wigmath3.wig"/>
eb53be9a09f4 Uploaded
timpalpant
parents: 12
diff changeset
24 <param name="base" value="10"/>
eb53be9a09f4 Uploaded
timpalpant
parents: 12
diff changeset
25 <output name="output" file="logger3.wig"/>
4
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
26 </test>
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
27 <test>
13
eb53be9a09f4 Uploaded
timpalpant
parents: 12
diff changeset
28 <param name="input" value="wigmath1.bw"/>
4
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
29 <param name="base" value="2"/>
13
eb53be9a09f4 Uploaded
timpalpant
parents: 12
diff changeset
30 <output name="output" file="logger4.wig"/>
4
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
31 </test>
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
32 <test>
13
eb53be9a09f4 Uploaded
timpalpant
parents: 12
diff changeset
33 <param name="input" value="wigmath2.bw"/>
eb53be9a09f4 Uploaded
timpalpant
parents: 12
diff changeset
34 <param name="base" value="3"/>
eb53be9a09f4 Uploaded
timpalpant
parents: 12
diff changeset
35 <output name="output" file="logger5.wig"/>
4
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
36 </test>
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
37 <test>
13
eb53be9a09f4 Uploaded
timpalpant
parents: 12
diff changeset
38 <param name="input" value="wigmath3.bw"/>
4
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
39 <param name="base" value="10"/>
13
eb53be9a09f4 Uploaded
timpalpant
parents: 12
diff changeset
40 <output name="output" file="logger6.wig"/>
eb53be9a09f4 Uploaded
timpalpant
parents: 12
diff changeset
41 </test>
4
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
42 </tests>
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
43
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
44 <help>
12
81d5b81fb3c2 Added help for all tools in the toolkit. Many bug fixes and a few new nucleosome tools.
timpalpant
parents: 4
diff changeset
45
81d5b81fb3c2 Added help for all tools in the toolkit. Many bug fixes and a few new nucleosome tools.
timpalpant
parents: 4
diff changeset
46 .. class:: infomark
81d5b81fb3c2 Added help for all tools in the toolkit. Many bug fixes and a few new nucleosome tools.
timpalpant
parents: 4
diff changeset
47
81d5b81fb3c2 Added help for all tools in the toolkit. Many bug fixes and a few new nucleosome tools.
timpalpant
parents: 4
diff changeset
48 **TIP:** If your dataset does not appear in the pulldown menu, it means that it is not in Wig or BigWig format. Use "edit attributes" to set the correct format if it was not detected correctly.
81d5b81fb3c2 Added help for all tools in the toolkit. Many bug fixes and a few new nucleosome tools.
timpalpant
parents: 4
diff changeset
49
4
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
50 </help>
4b32ed5d4a1b Uploaded
timpalpant
parents:
diff changeset
51 </tool>