# HG changeset patch
# User sauria
# Date 1429211855 14400
# Node ID a1ab64129a04a6143a8e1ef7edc7655bc49bc987
# Parent  05320ceddeadd26d0c5415c104463cb535b56772
Uploaded

diff -r 05320ceddead -r a1ab64129a04 hifive/hifive/complete_fivec_project.xml
--- a/hifive/hifive/complete_fivec_project.xml	Thu Apr 16 15:13:44 2015 -0400
+++ b/hifive/hifive/complete_fivec_project.xml	Thu Apr 16 15:17:35 2015 -0400
@@ -1,10 +1,10 @@
 <tool id="complete_fivec_project" name="analyze_5C_data">
     <requirements>
-        <requirement type='package' name="hifive"/>
-        <requirement type='package' name="numpy"/>
-        <requirement type='package' name="scipy"/>
-        <requirement type='package' name="h5py"/>
-        <requirement type='package' name="cython"/>
+        <requirement type='package' name="hifive" version="1.0.2"/>
+        <requirement type='package' name="numpy" version="1.9"/>
+        <requirement type='package' name="scipy" version="0.14"/>
+        <requirement type='package' name="h5py" version="2.4.0"/>
+        <requirement type='package' name="cython" version="0.20.1"/>
     </requirements>
     <description>from start to finish, including creating a fragmentset, dataset, and corrected HiFive 5C project</description>
     <command>
diff -r 05320ceddead -r a1ab64129a04 hifive/hifive/complete_hic_project.xml
--- a/hifive/hifive/complete_hic_project.xml	Thu Apr 16 15:13:44 2015 -0400
+++ b/hifive/hifive/complete_hic_project.xml	Thu Apr 16 15:17:35 2015 -0400
@@ -1,10 +1,10 @@
 <tool id="complete_hic_project" name="analyze_HiC_data">
     <requirements>
-        <requirement type='package' name="hifive"/>
-        <requirement type='package' name="numpy"/>
-        <requirement type='package' name="scipy"/>
-        <requirement type='package' name="h5py"/>
-        <requirement type='package' name="cython"/>
+        <requirement type='package' name="hifive" version="1.0.2"/>
+        <requirement type='package' name="numpy" version="1.9"/>
+        <requirement type='package' name="scipy" version="0.14"/>
+        <requirement type='package' name="h5py" version="2.4.0"/>
+        <requirement type='package' name="cython" version="0.20.1"/>
     </requirements>
     <description>from start to finish, including creating a fendset, dataset, and corrected HiFive HiC project</description>
     <command>
diff -r 05320ceddead -r a1ab64129a04 hifive/hifive/create_fivec_dataset.xml
--- a/hifive/hifive/create_fivec_dataset.xml	Thu Apr 16 15:13:44 2015 -0400
+++ b/hifive/hifive/create_fivec_dataset.xml	Thu Apr 16 15:17:35 2015 -0400
@@ -1,10 +1,10 @@
 <tool id="create_fivec_dataset" name="create_5C_dataset">
     <requirements>
-        <requirement type='package' name="hifive"/>
-        <requirement type='package' name="numpy"/>
-        <requirement type='package' name="scipy"/>
-        <requirement type='package' name="h5py"/>
-        <requirement type='package' name="cython"/>
+        <requirement type='package' name="hifive" version="1.0.2"/>
+        <requirement type='package' name="numpy" version="1.9"/>
+        <requirement type='package' name="scipy" version="0.14"/>
+        <requirement type='package' name="h5py" version="2.4.0"/>
+        <requirement type='package' name="cython" version="0.20.1"/>
     </requirements>
     <description>create a HiFive 5C data object</description>
     <command>
diff -r 05320ceddead -r a1ab64129a04 hifive/hifive/create_fivec_fragmentset.xml
--- a/hifive/hifive/create_fivec_fragmentset.xml	Thu Apr 16 15:13:44 2015 -0400
+++ b/hifive/hifive/create_fivec_fragmentset.xml	Thu Apr 16 15:17:35 2015 -0400
@@ -1,10 +1,10 @@
 <tool id="create_fragmentset" name="create_fragments">
     <requirements>
-        <requirement type='package' name="hifive"/>
-        <requirement type='package' name="numpy"/>
-        <requirement type='package' name="scipy"/>
-        <requirement type='package' name="h5py"/>
-        <requirement type='package' name="cython"/>
+        <requirement type='package' name="hifive" version="1.0.2"/>
+        <requirement type='package' name="numpy" version="1.9"/>
+        <requirement type='package' name="scipy" version="0.14"/>
+        <requirement type='package' name="h5py" version="2.4.0"/>
+        <requirement type='package' name="cython" version="0.20.1"/>
     </requirements>
     <description>create a HiFive fragment object</description>
     <command>hifive fragments -q $input $output</command>
diff -r 05320ceddead -r a1ab64129a04 hifive/hifive/create_fivec_heatmap.xml
--- a/hifive/hifive/create_fivec_heatmap.xml	Thu Apr 16 15:13:44 2015 -0400
+++ b/hifive/hifive/create_fivec_heatmap.xml	Thu Apr 16 15:17:35 2015 -0400
@@ -1,10 +1,10 @@
 <tool id="create_fivec_heatmap" name="generate_5C_heatmaps">
     <requirements>
-        <requirement type='package' name="hifive"/>
-        <requirement type='package' name="numpy"/>
-        <requirement type='package' name="scipy"/>
-        <requirement type='package' name="h5py"/>
-        <requirement type='package' name="cython"/>
+        <requirement type='package' name="hifive" version="1.0.2"/>
+        <requirement type='package' name="numpy" version="1.9"/>
+        <requirement type='package' name="scipy" version="0.14"/>
+        <requirement type='package' name="h5py" version="2.4.0"/>
+        <requirement type='package' name="cython" version="0.20.1"/>
     </requirements>
     <description>create an hdf5 dictionary of heatmaps for a HiFive 5C project</description>
     <command>
diff -r 05320ceddead -r a1ab64129a04 hifive/hifive/create_fivec_project.xml
--- a/hifive/hifive/create_fivec_project.xml	Thu Apr 16 15:13:44 2015 -0400
+++ b/hifive/hifive/create_fivec_project.xml	Thu Apr 16 15:17:35 2015 -0400
@@ -1,10 +1,10 @@
 <tool id="create_fivec_project" name="create_5C_project">
     <requirements>
-        <requirement type='package' name="hifive"/>
-        <requirement type='package' name="numpy"/>
-        <requirement type='package' name="scipy"/>
-        <requirement type='package' name="h5py"/>
-        <requirement type='package' name="cython"/>
+        <requirement type='package' name="hifive" version="1.0.2"/>
+        <requirement type='package' name="numpy" version="1.9"/>
+        <requirement type='package' name="scipy" version="0.14"/>
+        <requirement type='package' name="h5py" version="2.4.0"/>
+        <requirement type='package' name="cython" version="0.20.1"/>
     </requirements>
     <description>create a HiFive 5C project object</description>
     <command>
diff -r 05320ceddead -r a1ab64129a04 hifive/hifive/create_hic_dataset.xml
--- a/hifive/hifive/create_hic_dataset.xml	Thu Apr 16 15:13:44 2015 -0400
+++ b/hifive/hifive/create_hic_dataset.xml	Thu Apr 16 15:17:35 2015 -0400
@@ -1,10 +1,10 @@
 <tool id="create_hic_dataset" name="create_HiC_dataset">
     <requirements>
-        <requirement type='package' name="hifive"/>
-        <requirement type='package' name="numpy"/>
-        <requirement type='package' name="scipy"/>
-        <requirement type='package' name="h5py"/>
-        <requirement type='package' name="cython"/>
+        <requirement type='package' name="hifive" version="1.0.2"/>
+        <requirement type='package' name="numpy" version="1.9"/>
+        <requirement type='package' name="scipy" version="0.14"/>
+        <requirement type='package' name="h5py" version="2.4.0"/>
+        <requirement type='package' name="cython" version="0.20.1"/>
     </requirements>
     <description>create a HiFive HiC data object</description>
     <command>
diff -r 05320ceddead -r a1ab64129a04 hifive/hifive/create_hic_fendset.xml
--- a/hifive/hifive/create_hic_fendset.xml	Thu Apr 16 15:13:44 2015 -0400
+++ b/hifive/hifive/create_hic_fendset.xml	Thu Apr 16 15:17:35 2015 -0400
@@ -1,10 +1,10 @@
 <tool id="create_fendset" name="create_fends">
     <requirements>
-        <requirement type='package' name="hifive"/>
-        <requirement type='package' name="numpy"/>
-        <requirement type='package' name="scipy"/>
-        <requirement type='package' name="h5py"/>
-        <requirement type='package' name="cython"/>
+        <requirement type='package' name="hifive" version="1.0.2"/>
+        <requirement type='package' name="numpy" version="1.9"/>
+        <requirement type='package' name="scipy" version="0.14"/>
+        <requirement type='package' name="h5py" version="2.4.0"/>
+        <requirement type='package' name="cython" version="0.20.1"/>
     </requirements>
     <description>create a HiFive fend object</description>
     <command>hifive fends -q --bed $input $output</command>
diff -r 05320ceddead -r a1ab64129a04 hifive/hifive/create_hic_heatmap.xml
--- a/hifive/hifive/create_hic_heatmap.xml	Thu Apr 16 15:13:44 2015 -0400
+++ b/hifive/hifive/create_hic_heatmap.xml	Thu Apr 16 15:17:35 2015 -0400
@@ -1,10 +1,10 @@
 <tool id="create_hic_heatmap" name="generate_HiC_heatmaps">
     <requirements>
-        <requirement type='package' name="hifive"/>
-        <requirement type='package' name="numpy"/>
-        <requirement type='package' name="scipy"/>
-        <requirement type='package' name="h5py"/>
-        <requirement type='package' name="cython"/>
+        <requirement type='package' name="hifive" version="1.0.2"/>
+        <requirement type='package' name="numpy" version="1.9"/>
+        <requirement type='package' name="scipy" version="0.14"/>
+        <requirement type='package' name="h5py" version="2.4.0"/>
+        <requirement type='package' name="cython" version="0.20.1"/>
     </requirements>
     <description>create an hdf5 dictionary of heatmaps for a HiFive HiC project</description>
     <command>
diff -r 05320ceddead -r a1ab64129a04 hifive/hifive/create_hic_project.xml
--- a/hifive/hifive/create_hic_project.xml	Thu Apr 16 15:13:44 2015 -0400
+++ b/hifive/hifive/create_hic_project.xml	Thu Apr 16 15:17:35 2015 -0400
@@ -1,10 +1,10 @@
 <tool id="create_hic_project" name="create_HiC_project">
     <requirements>
-        <requirement type='package' name="hifive"/>
-        <requirement type='package' name="numpy"/>
-        <requirement type='package' name="scipy"/>
-        <requirement type='package' name="h5py"/>
-        <requirement type='package' name="cython"/>
+        <requirement type='package' name="hifive" version="1.0.2"/>
+        <requirement type='package' name="numpy" version="1.9"/>
+        <requirement type='package' name="scipy" version="0.14"/>
+        <requirement type='package' name="h5py" version="2.4.0"/>
+        <requirement type='package' name="cython" version="0.20.1"/>
     </requirements>
     <description>create a HiFive HiC project object</description>
     <command>
diff -r 05320ceddead -r a1ab64129a04 hifive/hifive/get_interval_fivec_data.xml
--- a/hifive/hifive/get_interval_fivec_data.xml	Thu Apr 16 15:13:44 2015 -0400
+++ b/hifive/hifive/get_interval_fivec_data.xml	Thu Apr 16 15:17:35 2015 -0400
@@ -1,10 +1,10 @@
 <tool id="get_interval_fivec_data" name="get_interval_5C_data">
     <requirements>
-        <requirement type='package' name="hifive"/>
-        <requirement type='package' name="numpy"/>
-        <requirement type='package' name="scipy"/>
-        <requirement type='package' name="h5py"/>
-        <requirement type='package' name="cython"/>
+        <requirement type='package' name="hifive" version="1.0.2"/>
+        <requirement type='package' name="numpy" version="1.9"/>
+        <requirement type='package' name="scipy" version="0.14"/>
+        <requirement type='package' name="h5py" version="2.4.0"/>
+        <requirement type='package' name="cython" version="0.20.1"/>
     </requirements>
     <description>create an interval file containing 5C data</description>
     <command>
diff -r 05320ceddead -r a1ab64129a04 hifive/hifive/get_interval_hic_data.xml
--- a/hifive/hifive/get_interval_hic_data.xml	Thu Apr 16 15:13:44 2015 -0400
+++ b/hifive/hifive/get_interval_hic_data.xml	Thu Apr 16 15:17:35 2015 -0400
@@ -1,10 +1,10 @@
 <tool id="get_interval_hic_data" name="get_interval_HiC_data">
     <requirements>
-        <requirement type='package' name="hifive"/>
-        <requirement type='package' name="numpy"/>
-        <requirement type='package' name="scipy"/>
-        <requirement type='package' name="h5py"/>
-        <requirement type='package' name="cython"/>
+        <requirement type='package' name="hifive" version="1.0.2"/>
+        <requirement type='package' name="numpy" version="1.9"/>
+        <requirement type='package' name="scipy" version="0.14"/>
+        <requirement type='package' name="h5py" version="2.4.0"/>
+        <requirement type='package' name="cython" version="0.20.1"/>
     </requirements>
     <description>create an interval file containing HiC data</description>
     <command>
diff -r 05320ceddead -r a1ab64129a04 hifive/hifive/learn_fivec_normalization.xml
--- a/hifive/hifive/learn_fivec_normalization.xml	Thu Apr 16 15:13:44 2015 -0400
+++ b/hifive/hifive/learn_fivec_normalization.xml	Thu Apr 16 15:17:35 2015 -0400
@@ -1,10 +1,10 @@
 <tool id="learn_fivec_normalization" name="normalize_5C_project">
     <requirements>
-        <requirement type='package' name="hifive"/>
-        <requirement type='package' name="numpy"/>
-        <requirement type='package' name="scipy"/>
-        <requirement type='package' name="h5py"/>
-        <requirement type='package' name="cython"/>
+        <requirement type='package' name="hifive" version="1.0.2"/>
+        <requirement type='package' name="numpy" version="1.9"/>
+        <requirement type='package' name="scipy" version="0.14"/>
+        <requirement type='package' name="h5py" version="2.4.0"/>
+        <requirement type='package' name="cython" version="0.20.1"/>
     </requirements>
     <description>learn fragment normalization values using probablistic approach</description>
     <command>
diff -r 05320ceddead -r a1ab64129a04 hifive/hifive/learn_hic_normalization.xml
--- a/hifive/hifive/learn_hic_normalization.xml	Thu Apr 16 15:13:44 2015 -0400
+++ b/hifive/hifive/learn_hic_normalization.xml	Thu Apr 16 15:17:35 2015 -0400
@@ -1,10 +1,10 @@
 <tool id="learn_hic_normalization" name="normalize_HiC_project">
     <requirements>
-        <requirement type='package' name="hifive"/>
-        <requirement type='package' name="numpy"/>
-        <requirement type='package' name="scipy"/>
-        <requirement type='package' name="h5py"/>
-        <requirement type='package' name="cython"/>
+        <requirement type='package' name="hifive" version="1.0.2"/>
+        <requirement type='package' name="numpy" version="1.9"/>
+        <requirement type='package' name="scipy" version="0.14"/>
+        <requirement type='package' name="h5py" version="2.4.0"/>
+        <requirement type='package' name="cython" version="0.20.1"/>
     </requirements>
     <description>learn fend normalization values using probablistic approach</description>
     <command>