Mercurial > repos > stevecassidy > alveoimport

changeset 16:fd22df0c6d9b draft

Find changesets by keywords (author, files, the commit message), revision number or hash, or revset expression.
planemo upload for repository https://github.com/Alveo/alveo-galaxy-tools commit f2432aaedd36ae7662873623d8861d0982dffdd2-dirty
author stevecassidy
date Sun, 03 Dec 2017 18:21:20 -0500
parents 3fd0f8f1f3ce
children b69f6d41d17c
files alveo_api_key.xml alveo_data_importer.xml alveo_get_item_data.xml alveo_get_item_list.xml alveo_get_primary_text.xml alveo_item_list_importer.xml austalk-select-hVd-words.xml
diffstat 7 files changed, 15 insertions(+), 20 deletions(-) [+]
line wrap: on
line diff
--- a/alveo_api_key.xml	Thu Nov 16 06:52:17 2017 -0500
+++ b/alveo_api_key.xml	Sun Dec 03 18:21:20 2017 -0500
@@ -1,8 +1,8 @@
-<tool id="alveo_api_key_storer" name="Store Alveo API Key" version="0.01">
+<tool id="alveo_api_key_storer" name="Store Alveo API Key" version="1.0">
     <description>for use with Alveo tools</description>
 
     <requirements>
-        <requirement type="package" version="0.7">pyalveo</requirement>
+        <requirement type="package" version="1.0.4">pyalveo</requirement>
     </requirements>
 
     <command interpreter="python">
--- a/alveo_data_importer.xml	Thu Nov 16 06:52:17 2017 -0500
+++ b/alveo_data_importer.xml	Sun Dec 03 18:21:20 2017 -0500
@@ -1,10 +1,10 @@
-<tool id="alveo_data_importer" name="Get Item URLs for Item List + API Key" version="0.01">
+<tool id="alveo_data_importer" name="Get Item URLs for Item List + API Key" version="1.0">
     <description>Stores API Key and Retrieves Item URLs from an Alveo Item List
         Version called directly from the Alveo web application
     </description>
 
     <requirements>
-        <requirement type="package" version="0.7">pyalveo</requirement>
+        <requirement type="package" version="1.0.4">pyalveo</requirement>
     </requirements>
 
     <command interpreter="python">
--- a/alveo_get_item_data.xml	Thu Nov 16 06:52:17 2017 -0500
+++ b/alveo_get_item_data.xml	Sun Dec 03 18:21:20 2017 -0500
@@ -1,8 +1,8 @@
-<tool id="alveo_get_item_data" name="Get Alveo Data for Items" version="0.01">
+<tool id="alveo_get_item_data" name="Get Alveo Data for Items" version="1.0">
     <description>Downloads files from the items in an Galaxy list of items</description>
 
     <requirements>
-        <requirement type="package" version="0.7">pyalveo</requirement>
+        <requirement type="package" version="1.0.4">pyalveo</requirement>
     </requirements>
 
     <command interpreter="python">
--- a/alveo_get_item_list.xml	Thu Nov 16 06:52:17 2017 -0500
+++ b/alveo_get_item_list.xml	Sun Dec 03 18:21:20 2017 -0500
@@ -1,8 +1,8 @@
-<tool id="alveo_get_item_list" name="Get Item URLs for Item List" version="0.01">
+<tool id="alveo_get_item_list" name="Get Item URLs for Item List" version="1.0">
     <description>Retrieves Item URLs from an Alveo Item List</description>
 
     <requirements>
-        <requirement type="package" version="0.7">pyalveo</requirement>
+        <requirement type="package" version="1.0.4">pyalveo</requirement>
     </requirements>
 
     <command interpreter="python">
--- a/alveo_get_primary_text.xml	Thu Nov 16 06:52:17 2017 -0500
+++ b/alveo_get_primary_text.xml	Sun Dec 03 18:21:20 2017 -0500
@@ -1,8 +1,8 @@
-<tool id="alveo_get_primary_text" name="Get Text from Alveo" version="0.01">
+<tool id="alveo_get_primary_text" name="Get Text from Alveo" version="1.0">
     <description>Downloads primary text from the items in an Alveo Item List</description>
 
     <requirements>
-        <requirement type="package" version="0.7">pyalveo</requirement>
+        <requirement type="package" version="1.0.4">pyalveo</requirement>
     </requirements>
 
     <command interpreter="python">
@@ -12,13 +12,10 @@
     <inputs>
         <param name="api_key" type="data" format="auth_token" label="API Key" help="Your Alveo API key"/>
         <param name="item_list" type="data" format="item_list" label="Item List" help=""/>
-
-        <param name="job_name" type="text" size="25"
-               label="Supply a name for the outputs to remind you what they contain" value="Item List downloaded from Alveo"/>
     </inputs>
 
     <outputs>
-        <collection type="list" label="$job_name" name="output1">
+        <collection type="list" label="$item_list Texts" name="output1">
             <discover_datasets pattern="(?P&lt;designation&gt;[^_]+)_(?P&lt;ext&gt;.+)" directory="ItemListData"/>
         </collection>
     </outputs>
@@ -26,7 +23,6 @@
     <tests>
         <test>
             <param name="api_key" value="api-key.dat"/>
-            <param name="import_list" value="item-lists.dat"/>
             <param name="item_list" value="item_list_180.dat"/>
             <param name="output_path" value="test_out"/>
             <output_collection name="output1" type="list" count="6">
@@ -39,7 +35,6 @@
         </test>
         <test>
             <param name="api_key" value="api-key.dat"/>
-            <param name="import_list" value="item-lists.dat"/>
             <param name="item_list" value="item_list_52.dat"/>
             <param name="output_path" value="test_out"/>
             <output_collection name="output1" type="list" count="0">
--- a/alveo_item_list_importer.xml	Thu Nov 16 06:52:17 2017 -0500
+++ b/alveo_item_list_importer.xml	Sun Dec 03 18:21:20 2017 -0500
@@ -1,8 +1,8 @@
-<tool id="alveo_item_list_importer" name="Import Item List Names" version="0.01">
+<tool id="alveo_item_list_importer" name="Import Item List Names" version="1.0">
     <description>Retrieves the list of Item List URLs from Alveo.</description>
 
     <requirements>
-        <requirement type="package" version="0.7">pyalveo</requirement>
+        <requirement type="package" version="1.0.4">pyalveo</requirement>
     </requirements>
 
     <command interpreter="python">
--- a/austalk-select-hVd-words.xml	Thu Nov 16 06:52:17 2017 -0500
+++ b/austalk-select-hVd-words.xml	Sun Dec 03 18:21:20 2017 -0500
@@ -1,8 +1,8 @@
-<tool id="austalk-select-hvd-words" name="Find HVD words in Austalk" version="0.01">
+<tool id="austalk-select-hvd-words" name="Find HVD words in Austalk" version="1.0">
     <description>for a single speaker</description>
 
     <requirements>
-        <requirement type="package" version="0.7">pyalveo</requirement>
+        <requirement type="package" version="1.0.4">pyalveo</requirement>
     </requirements>
 
     <command interpreter="python">