Merge pull request #67 from ICGC-TCGA-PanCancer/dev

Fix some doc and path issues
ICGC-TCGA-PanCancer · Feb 24, 2015 · a214c4e · a214c4e
2 parents 210589c + 786a0ef
commit a214c4e
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Showing 7 changed files with 8 additions and 7 deletions.
diff --git a/MYMETA.json b/MYMETA.json
@@ -55,5 +55,5 @@
       }
    },
    "release_status" : "stable",
-   "version" : "v1.5.1"
+   "version" : "v1.5.2"
 }
diff --git a/MYMETA.yml b/MYMETA.yml
@@ -37,4 +37,4 @@ requires:
   Test::Fatal: '0.013'
   Try::Tiny: '0.19'
   XML::Simple: '2.2'
-version: v1.5.1
+version: v1.5.2
diff --git a/bin/bamToBw.pl b/bin/bamToBw.pl
@@ -44,7 +44,7 @@ BEGIN
 use PCAP::Threaded;
 use version;
 
-const my @VALID_PROCESS => qw(bamToBw catBw generateBw);
+const my @VALID_PROCESS => qw(bamToBw mergeBw generateBw);
 const my %INDEX_FACTOR => ( 'bamToBw' => -1,
                             'mergeBw' => 1,
                             'generateBw' => 1,
@@ -189,7 +189,8 @@ =head1 SYNOPSIS
     bamToBw.pl -b in.bam -o out.bw -p bamToBw -i 1..X
      # X can be determined with 'bamToBw.pl -b in.bam -o out.bw -j'
      # once all above steps completed
-    bamToBw.pl -b in.bam -o out.bw -p catBw -i 1
+    bamToBw.pl -b in.bam -o out.bw -p mergeBw -i 1
+    bamToBw.pl -b in.bam -o out.bw -p generateBw -i 1
 
 
   Run with '-m' for possible input file types.

diff --git a/c/Makefile b/c/Makefile
@@ -1,4 +1,4 @@
-VERSION=1.5.1
+VERSION=1.5.2
 
 #Compiler
 CC = gcc -O3 -DVERSION='"$(VERSION)"' -g

diff --git a/docs.tar.gz b/docs.tar.gz
diff --git a/lib/PCAP.pm b/lib/PCAP.pm
@@ -24,7 +24,7 @@ use strict;
 use Const::Fast qw(const);
 use base 'Exporter';
 
-our $VERSION = '1.5.1';
+our $VERSION = '1.5.2';
 our @EXPORT = qw($VERSION);
 
 const my $LICENSE =>

diff --git a/setup.sh b/setup.sh
@@ -8,7 +8,7 @@ SOURCE_SAMTOOLS="https://github.com/samtools/samtools/archive/0.1.20.tar.gz"
 SOURCE_HTSLIB="https://github.com/samtools/htslib/archive/1.1.tar.gz"
 
 # for bigwig
-SOURCE_JKENT_BIN="https://github.com/ENCODE-DCC/kentUtils/tree/master/bin/linux.x86_64"
+SOURCE_JKENT_BIN="https://github.com/ENCODE-DCC/kentUtils/raw/master/bin/linux.x86_64"
 
 done_message () {
     if [ $? -eq 0 ]; then