# HG changeset patch # User stheil # Date 1443110256 14400 # Node ID 1fde0b7d7d404c26a5052973adad801ffd9544f7 Uploaded diff -r 000000000000 -r 1fde0b7d7d40 tool_dependencies.xml --- /dev/null Thu Jan 01 00:00:00 1970 +0000 +++ b/tool_dependencies.xml Thu Sep 24 11:57:36 2015 -0400 @@ -0,0 +1,137 @@ + + + + + + git clone https://github.com/loneknightpy/idba.git idba + idba + ./build.sh + ./configure + make + + bin/fa2fq + $INSTALL_DIR/bin + + + bin/filter_blat + $INSTALL_DIR/bin + + + bin/filter_contigs + $INSTALL_DIR/bin + + + bin/filterfa + $INSTALL_DIR/bin + + + bin/fq2fa + $INSTALL_DIR/bin + + + bin/idba + $INSTALL_DIR/bin + + + bin/idba_hybrid + $INSTALL_DIR/bin + + + bin/idba_tran + $INSTALL_DIR/bin + + + bin/idba_tran_test + $INSTALL_DIR/bin + + + bin/idba_ud + $INSTALL_DIR/bin + + + bin/parallel_blat + $INSTALL_DIR/bin + + + bin/parallel_rna_blat + $INSTALL_DIR/bin + + + bin/print_graph + $INSTALL_DIR/bin + + + bin/raw_n50 + $INSTALL_DIR/bin + + + bin/sample_reads + $INSTALL_DIR/bin + + + bin/scaffold + $INSTALL_DIR/bin + + + bin/shuffle_reads + $INSTALL_DIR/bin + + + bin/sim_reads + $INSTALL_DIR/bin + + + bin/sim_reads_tran + $INSTALL_DIR/bin + + + bin/sort_psl + $INSTALL_DIR/bin + + + bin/sort_reads + $INSTALL_DIR/bin + + + bin/split_fa + $INSTALL_DIR/bin + + + bin/split_fq + $INSTALL_DIR/bin + + + bin/split_scaffold + $INSTALL_DIR/bin + + + bin/test + $INSTALL_DIR/bin + + + bin/validate_component + $INSTALL_DIR/bin + + + bin/validate_contigs_blat + $INSTALL_DIR/bin + + + bin/validate_contigs_mummer + $INSTALL_DIR/bin + + + bin/validate_reads_blat + $INSTALL_DIR/bin + + + bin/validate_rna + $INSTALL_DIR/bin + + + $INSTALL_DIR/bin + + + + +