# HG changeset patch
# User stef
# Date 1414404834 14400
# Node ID 6a847622a148f0e810dc590cf60994352454cfe1
# Parent  e2f6869f2638485265ea3e1c3f2d582f22131617
Uploaded

diff -r e2f6869f2638 -r 6a847622a148 tool_dependencies.xml
--- a/tool_dependencies.xml	Tue Oct 07 08:02:35 2014 -0400
+++ b/tool_dependencies.xml	Mon Oct 27 06:13:54 2014 -0400
@@ -18,7 +18,7 @@
 					<package>http://www.bioconductor.org/packages/release/bioc/src/contrib/limma_3.20.9.tar.gz</package>
 					<package>http://bioconductor.org/packages/release/bioc/src/contrib/Rsamtools_1.16.1.tar.gz</package>
 				-->
-
+					<!--
 					<package>http://cran.fhcrc.org/src/contrib/R.methodsS3_1.6.1.tar.gz</package>
 					<package>http://cran.fhcrc.org/src/contrib/matrixStats_0.10.0.tar.gz</package>
 					<package>http://cran.fhcrc.org/src/contrib/R.oo_1.18.0.tar.gz</package>
@@ -30,6 +30,8 @@
 					<package>http://bioconductor.org/packages/2.14/bioc/src/contrib/CGHbase_1.24.0.tar.gz</package>
 					<package>http://bioconductor.org/packages/2.14/bioc/src/contrib/impute_1.38.1.tar.gz</package>
 					<package>http://bioconductor.org/packages/2.14/bioc/src/contrib/DNAcopy_1.38.1.tar.gz</package>
+					-->
+
 					<!--
 					<package>http://cran.fhcrc.org/src/contrib/snow_0.3-13.tar.gz</package>
 					<package>http://cran.fhcrc.org/src/contrib/snowfall_1.84-6.tar.gz</package>
@@ -47,6 +49,7 @@
 
 
 					<!--
+
 					<package>http://path/to/R.methodsS3_1.6.1.tar.gz</package>
 					<package>http://path/to/matrixStats_0.10.0.tar.gz</package>
 					<package>http://path/to/R.oo_1.18.0.tar.gz</package>
@@ -71,7 +74,30 @@
 					<package>http://path/to/Rsamtools_1.16.1.tar.gz</package>
 					<package>http://path/to/QDNAseq_1.0.5.tar.gz</package>
 					-->
-					
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/R.methodsS3_1.6.1.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/matrixStats_0.10.0.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/R.oo_1.18.0.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/R.utils_1.32.4.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/BiocGenerics_0.10.0.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/Biobase_2.24.0.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/limma_3.20.5.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/marray_1.42.0.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/CGHbase_1.24.0.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/impute_1.38.1.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/DNAcopy_1.38.1.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/snow_0.3-13.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/snowfall_1.84-6.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/CGHcall_2.26.0.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/IRanges_1.22.9.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/GenomeInfoDb_1.0.2.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/XVector_0.4.0.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/GenomicRanges_1.16.4.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/zlibbioc_1.10.0.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/Biostrings_2.32.1.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/bitops_1.0-6.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/Rsamtools_1.16.1.tar.gz</package>
+					<package>https://bitbucket.org/stef_van_lieshout/tmp/downloads/QDNAseq_1.0.5.tar.gz</package>
+
 				</action>
 				<action type="shell_command">echo "[DEBUG] ...after"</action>
 			</actions>