Mercurial > repos > greg > gene_family_integrator

changeset 22:1a54a0ba5a81 draft

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Uploaded
author greg
date Tue, 06 Jun 2017 08:46:37 -0400
parents b08f999574db
children 80996fca62c8
files plant_tribes_scaffolds.loc repository_dependencies.xml test-data/input.ptorthocs test-data/output.ptorthocs tool_data_table_conf.xml.test
diffstat 5 files changed, 65 insertions(+), 4 deletions(-) [+]
line wrap: on
line diff
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/plant_tribes_scaffolds.loc	Tue Jun 06 08:46:37 2017 -0400
@@ -0,0 +1,3 @@
+## Plant Tribes scaffolds
+#Value	Name	Path	Description
+22Gv1.1	22Gv1.1	${__HERE__}/test-data/tool-data/plant_tribes/scaffolds/22Gv1.1	22 plant genomes (Angiosperms clusters, version 1.1; 22Gv1.1)
--- a/repository_dependencies.xml	Tue May 30 08:14:17 2017 -0400
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,4 +0,0 @@
-<?xml version="1.0"?>
-<repositories description="This tool uses the data installed by the data_manager_plant_tribes_scaffolds_downloader Data Manager tool.">
-    <repository changeset_revision="8bb32fd5b175" name="data_manager_plant_tribes_scaffolds_downloader" owner="iuc" toolshed="https://testtoolshed.g2.bx.psu.edu" />
-</repositories>
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/input.ptorthocs	Tue Jun 06 08:46:37 2017 -0400
@@ -0,0 +1,28 @@
+<html><head><h3>Orthogroups and corresponding coding sequences files: 12 files</h3></head>
+<body><p/><table cellpadding="2">
+<tr><th>Size</th><th>Name</th></tr>
+<tr bgcolor="#D8D8D8"><td>145</td><td><a href="20.faa" type="text/plain">20.faa</a>
+</td></tr>
+<tr bgcolor="#FFFFFF"><td>145</td><td><a href="20.fna" type="text/plain">20.fna</a>
+</td></tr>
+<tr bgcolor="#D8D8D8"><td>99</td><td><a href="3494.faa" type="text/plain">3494.faa</a>
+</td></tr>
+<tr bgcolor="#FFFFFF"><td>12</td><td><a href="3494.fna" type="text/plain">3494.fna</a>
+</td></tr>
+<tr bgcolor="#D8D8D8"><td>111</td><td><a href="3722.faa" type="text/plain">3722.faa</a>
+</td></tr>
+<tr bgcolor="#FFFFFF"><td>111</td><td><a href="3722.fna" type="text/plain">3722.fna</a>
+</td></tr>
+<tr bgcolor="#D8D8D8"><td>183</td><td><a href="38889.faa" type="text/plain">38889.faa</a>
+</td></tr>
+<tr bgcolor="#FFFFFF"><td>183</td><td><a href="38889.fna" type="text/plain">38889.fna</a>
+</td></tr>
+<tr bgcolor="#D8D8D8"><td>138</td><td><a href="39614.faa" type="text/plain">39614.faa</a>
+</td></tr>
+<tr bgcolor="#FFFFFF"><td>11</td><td><a href="39614.fna" type="text/plain">39614.fna</a>
+</td></tr>
+<tr bgcolor="#D8D8D8"><td>128</td><td><a href="5235.faa" type="text/plain">5235.faa</a>
+</td></tr>
+<tr bgcolor="#FFFFFF"><td>11</td><td><a href="5235.fna" type="text/plain">5235.fna</a>
+</td></tr>
+</table></body></html>
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/output.ptorthocs	Tue Jun 06 08:46:37 2017 -0400
@@ -0,0 +1,28 @@
+<html><head><h3>Integrated gene family sequences: 12 files</h3></head>
+<body><p/><table cellpadding="2">
+<tr><th>Size</th><th>Name</th></tr>
+<tr bgcolor="#D8D8D8"><td>382392</td><td><a href="20.faa" type="text/plain">20.faa</a>
+</td></tr>
+<tr bgcolor="#FFFFFF"><td>1112659</td><td><a href="20.fna" type="text/plain">20.fna</a>
+</td></tr>
+<tr bgcolor="#D8D8D8"><td>21306</td><td><a href="3494.faa" type="text/plain">3494.faa</a>
+</td></tr>
+<tr bgcolor="#FFFFFF"><td>61243</td><td><a href="3494.fna" type="text/plain">3494.fna</a>
+</td></tr>
+<tr bgcolor="#D8D8D8"><td>9874</td><td><a href="3722.faa" type="text/plain">3722.faa</a>
+</td></tr>
+<tr bgcolor="#FFFFFF"><td>27053</td><td><a href="3722.fna" type="text/plain">3722.fna</a>
+</td></tr>
+<tr bgcolor="#D8D8D8"><td>765</td><td><a href="38889.faa" type="text/plain">38889.faa</a>
+</td></tr>
+<tr bgcolor="#FFFFFF"><td>1801</td><td><a href="38889.fna" type="text/plain">38889.fna</a>
+</td></tr>
+<tr bgcolor="#D8D8D8"><td>1222</td><td><a href="39614.faa" type="text/plain">39614.faa</a>
+</td></tr>
+<tr bgcolor="#FFFFFF"><td>3136</td><td><a href="39614.fna" type="text/plain">39614.fna</a>
+</td></tr>
+<tr bgcolor="#D8D8D8"><td>22617</td><td><a href="5235.faa" type="text/plain">5235.faa</a>
+</td></tr>
+<tr bgcolor="#FFFFFF"><td>65568</td><td><a href="5235.fna" type="text/plain">5235.fna</a>
+</td></tr>
+</table></body></html>
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_data_table_conf.xml.test	Tue Jun 06 08:46:37 2017 -0400
@@ -0,0 +1,6 @@
+<tables>
+    <table name="plant_tribes_scaffolds" comment_char="#">
+        <columns>value, name, path, description</columns>
+        <file path="${__HERE__}/plant_tribes_scaffolds.loc" />
+    </table>
+</tables>