diff macs2_macros.xml @ 27:16545befe8b5 draft

Uploaded

--- a/macs2_macros.xml	Fri Sep 19 13:43:11 2014 -0400
+++ b/macs2_macros.xml	Thu Jan 08 13:39:36 2015 -0500
@@ -1,23 +1,25 @@
 <macros>
     <xml name="requirements">
         <requirements>
-            <requirement type="package" version="2.0.10.3">macs2</requirement>
+            <requirement type="package" version="2.1.0">macs2</requirement>
             <requirement type="package" version="1.7.1">numpy</requirement>
             <requirement type="package" version="0.12.0">scipy</requirement>
             <yield />
         </requirements>
     </xml>
 
+    <token name="@VERSION_STRING@">2.1.0.20140616</token>
+
     <xml name="conditional_effective_genome_size">
         <conditional name="effective_genome_size_options">
             <param name="effective_genome_size_options_selector" type="select" label="Effective genome size"
                 help="The effective genome size is the portion of the genome that is mappable. Large fractions of the genome are stretches of NNNN that should be discarded.
                     Also, if repetitive regions were not included in the mapping of reads, the effective genome size needs to be adjusted accordingly.
                     See Table 2 of http://www.plosone.org/article/info%3Adoi%2F10.1371%2Fjournal.pone.0030377 or http://www.nature.com/nbt/journal/v27/n1/fig_tab/nbt.1518_T1.html for several effective genome sizes. (--gsize)">
-                <option value="2451960000">Human (2.451.960.000)</option>
-                <option value="2150570000">Mouse (2.150.570.000)</option>
-                <option value="121400000">Fly (121.400.000)</option>
-                <option value="93260000">Worm (93.260.000)</option>
+                <option value="2451960000">Human (2,451,960,000)</option>
+                <option value="2150570000">Mouse (2,150,570,000)</option>
+                <option value="121400000">Fly (121,400,000)</option>
+                <option value="93260000">Worm (93,260,000)</option>
                 <option value="user_defined">User defined</option>
             </param>
             <when value="user_defined">
@@ -29,7 +31,7 @@
     <xml name="keep_duplicates">
         <conditional name="keep_dup_options">
             <param name="keep_dup_options_selector" type="select" label="How many duplicate tags at the exact same location are allowed?"
-                help="The default 'auto' option calculates the maximum tags at the exact same location based on binomal distribution using 1e-5 as pvalue cutoff. The 'all' option keeps every tags. If an integer is given, at most this number of tags will be kept at the same location. The default is to keep one tag at the same location. (--keep-dup 1)">
+                help="The default 'auto' option calculates the maximum tags at the exact same location based on binomial distribution using 1e-5 as pvalue cutoff. The 'all' option keeps every tags. If an integer is given, at most this number of tags will be kept at the same location. The default is to keep one tag at the same location. (--keep-dup 1)">
                 <option value="1" selected="true">1</option>
                 <option value="all">all</option>
                 <option value="auto">auto</option>
@@ -58,7 +60,7 @@
     </xml>
 
     <xml name="tag_size">
-        <param name="tsize" type="float" label="Tag size" value="-1.0" help="This will overide the auto detected tag size. Per default that option is deactivated: -1.0 (--tsize)" />
+        <param name="tsize" type="float" label="Tag size" value="-1.0" help="This will override the auto detected tag size. Per default that option is deactivated: -1.0 (--tsize)" />
     </xml>
     <xml name="band_width">
         <param name="band_width" type="integer" value="300" label="Band width for picking regions to compute fragment size"