diff job_conf.xml.sample @ 0:b60f7012923b draft default tip

Uploaded

--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/job_conf.xml.sample	Wed Nov 25 14:49:54 2015 -0500
@@ -0,0 +1,88 @@
+<?xml version="1.0"?>
+<job_conf>
+    <plugins workers="4">
+        <!-- "workers" is the number of threads for the runner's work queue.
+             The default from <plugins> is used if not defined for a <plugin>.
+         -->
+        <plugin id="plugin_local" type="runner" load="galaxy.jobs.runners.local:LocalJobRunner"/>
+        <plugin id="plugin_pulsar_rest" type="runner" load="galaxy.jobs.runners.pulsar:PulsarRESTJobRunner">
+             <!-- Allow optimized HTTP calls with libcurl (defaults to urllib) -->
+             <!-- <param id="transport">curl</param> -->
+              <!-- *Experimental Caching*: Next parameter enables caching.
+                    Likely will not work with newer features such as MQ support.
+                    If this is enabled be sure to specify a `file_cache_dir` in
+                    the remote Pulsar's servers main configuration file.
+              -->
+             <!-- <param id="cache">True</param> -->
+        </plugin>
+    </plugins>
+
+    <destinations default="destination_local">
+        <destination id="destination_local" runner="plugin_local"/>
+
+        <destination id="destination_winserver_pulsar_rest" runner="plugin_pulsar_rest">
+          <param id="manager">_default_</param>
+          <param id="url">http://winserver.myu.edu:8900/</param>
+          <!-- If set, private_token must match token in remote Pulsar's
+          configuration. -->
+          <param id="private_token">your_ultra-secret_magic_token_here</param>
+              <!-- Uncomment the following statement to disable file staging (e.g.
+                 if there is a shared file system between Galaxy and the Pulsar
+                 server). Alternatively action can be set to 'copy' - to replace
+                 http transfers with file system copies, 'remote_transfer' to cause
+                 the Pulsar to initiate HTTP transfers instead of Galaxy, or
+                 'remote_copy' to cause Pulsar to initiate file system copies.
+                 If setting this to 'remote_transfer' be sure to specify a
+                 'galaxy_url' attribute on the runner plugin above. 
+               -->
+              <!-- <param id="default_file_action">none</param> -->
+              <!-- The above option is just the default, the transfer behavior
+                 none|copy|http can be configured on a per path basis via the
+                 following file. See Pulsar documentation for more details and
+                 examples.  
+               -->
+              <!-- <param id="file_action_config">file_actions.yaml</param> -->
+              <!-- The non-legacy Pulsar runners will attempt to resolve Galaxy
+                 dependencies remotely - to enable this set a tool_dependency_dir
+                 in Pulsar's configuration (can work with all the same dependency
+                 resolutions mechanisms as Galaxy - tool Shed installs, Galaxy
+                 packages, etc...). To disable this behavior, set the follow parameter
+                 to none. To generate the dependency resolution command locally
+                 set the following parameter local.
+               -->
+              <!-- <param id="dependency_resolution">none</params> -->
+              <!-- Uncomment following option to enable setting metadata on remote
+                 Pulsar server. The 'use_remote_datatypes' option is available for
+                 determining whether to use remotely configured datatypes or local
+                 ones (both alternatives are a little brittle). 
+               -->
+              <!-- <param id="remote_metadata">true</param> -->
+              <!-- <param id="use_remote_datatypes">false</param> -->
+              <!-- <param id="remote_property_galaxy_home">/path/to/remote/galaxy-central</param> -->
+              <!-- If remote Pulsar server is configured to run jobs as the real user,
+                 uncomment the following line to pass the current Galaxy user
+                 along. 
+               -->
+              <!-- <param id="submit_user">$__user_name__</param> -->
+              <!-- Various other submission parameters can be passed along to the Pulsar
+                 whose use will depend on the remote Pulsar's configured job manager.
+                 For instance:
+               -->
+               <!-- <param id="submit_native_specification">-P bignodes -R y -pe threads 8</param> -->
+              <!-- Disable parameter rewriting and rewrite generated commands
+                 instead. This may be required if remote host is Windows machine
+                 but probably not otherwise.
+               -->
+               <!-- <param id="rewrite_parameters">false</params> -->
+        </destination>
+
+    </destinations>
+
+    <tools>
+        <tool id="msconvert_win" destination="destination_winserver_pulsar_rest"/>
+    </tools>
+
+</job_conf>
+
+
+