# HG changeset patch
# User bgruening
# Date 1399025651 14400
# Node ID ad026c2db3e9eaaef9d8f44bdd4cf6e0145959ae
Uploaded
diff -r 000000000000 -r ad026c2db3e9 crt.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/crt.xml Fri May 02 06:14:11 2014 -0400
@@ -0,0 +1,74 @@
+
+ (CRT)
+
+
+ crisper_recognition_tool
+ CRISPR_RECOGNITION_TOOL_SCRIPT_PATH
+
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+ temp_output=\$(mktemp);
+ java -cp \$CRISPR_RECOGNITION_TOOL_JAR_PATH/CRT1.2-CLI.jar crt
+ -minNR $minNR
+ -minRL $minRL
+ -maxRL $maxRL
+ -minSL $minSL
+ -maxSL $maxSL
+ #if str($searchWL) != 'none':
+ -searchWL $searchWL
+ #end if
+ $input
+ \$temp_output
+ ;
+
+ python \$CRISPR_RECOGNITION_TOOL_SCRIPT_PATH/reformat.py \$temp_output $output_region $output
+
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+CRISPR Recognition Tool - a tool for automatic detection of clustered regularly interspaced palindromic repeats
+
+http://www.room220.com/crt/
+
+**Citation**
+
+For the underlying tool, please cite `Bland C, Ramsey TL, Sabree F, Lowe M, Brown K, Kyrpides NC, Hugenholtz P:
+CRISPR Recognition Tool (CRT): a tool for automatic detection of clustered regularly interspaced palindromic repeats. BMC Bioinformatics. 2007 Jun 18;8(1):209`
+
+
+
+
diff -r 000000000000 -r ad026c2db3e9 readme.rst
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/readme.rst Fri May 02 06:14:11 2014 -0400
@@ -0,0 +1,48 @@
+Galaxy wrapper for CRISPR RECOGNITION TOOL
+==========================================
+
+This wrapper is copyright 2012-2013 by Björn Grüning and Omer Alkhnbashi
+
+This is a wrapper for the command line tool of CRT.
+
+CRISPR Recognition Tool - a tool for automatic detection of clustered regularly interspaced palindromic repeats
+
+http://www.room220.com/crt/
+
+For the underlying tool, please cite `Bland C, Ramsey TL, Sabree F, Lowe M, Brown K, Kyrpides NC, Hugenholtz P:
+CRISPR Recognition Tool (CRT): a tool for automatic detection of clustered regularly interspaced palindromic repeats. BMC Bioinformatics. 2007 Jun 18;8(1):209`
+
+
+Installation
+============
+
+Galaxy should be able to automatically install the dependencies.
+
+
+History
+=======
+
+v0.1 - Initial public release
+
+
+Licence (MIT)
+=============
+
+Permission is hereby granted, free of charge, to any person obtaining a copy
+of this software and associated documentation files (the "Software"), to deal
+in the Software without restriction, including without limitation the rights
+to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
+copies of the Software, and to permit persons to whom the Software is
+furnished to do so, subject to the following conditions:
+
+The above copyright notice and this permission notice shall be included in
+all copies or substantial portions of the Software.
+
+THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
+IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
+FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL THE
+AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
+LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING FROM,
+OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER DEALINGS IN
+THE SOFTWARE.
+
diff -r 000000000000 -r ad026c2db3e9 reformat.py
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/reformat.py Fri May 02 06:14:11 2014 -0400
@@ -0,0 +1,24 @@
+#!/usr/bin/env python
+
+"""
+ Extract importent information from the standard output file and put it in some standard format, like BED and tabular.
+"""
+
+import sys
+
+bed = open(sys.argv[2], 'w+')
+tabular = open(sys.argv[3], 'w+')
+
+for line in open(sys.argv[1]):
+ # ORGANISM: gi|21226102|ref|NC_003901.1| Methanosarcina mazei Go1 chromosome, complete genome
+ if line.startswith('ORGANISM:'):
+ organism = line.lstrip('ORGANISM:').strip()
+ # CRISPR 1 Range: 679197 - 682529
+ if line.startswith('CRISPR '):
+ start,end = line.split('Range:')[1].strip().split('-')
+ start = start.strip()
+ end = end.strip()
+ bed.write('%s\t%s\t%s\n' % (organism, start, end))
+ if line.rstrip().endswith(']'):
+ cols = line.split()
+ tabular.write("%s\t%s\t%s\t%s\t%s\t%s\n" % (organism, cols[0], cols[1], cols[2], cols[4].rstrip(','), cols[5]))
diff -r 000000000000 -r ad026c2db3e9 test-data/crt.bed
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/crt.bed Fri May 02 06:14:11 2014 -0400
@@ -0,0 +1,3 @@
+CRISPRs 1 3592
+CRISPRs 3725 7933
+CRISPRs 7945 10797
diff -r 000000000000 -r ad026c2db3e9 test-data/crt.tab
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/crt.tab Fri May 02 06:14:11 2014 -0400
@@ -0,0 +1,142 @@
+CRISPRs 1 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC GATTGTTGTGCCCCTGGCGGTCGCTTTCAATGCCT 37 35
+CRISPRs 73 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC TAATCCTAATTAGGTTTGAGTTAGTATCTAGTGCCAT 37 37
+CRISPRs 147 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC ACAGATTTTGCTTCAGCTAGTACCAAAGGCTAG 37 33
+CRISPRs 217 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC TCGTAACTACCTTCTAAGTCTGTAGCGATGAATGTGG 37 37
+CRISPRs 291 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC CAAAATATAGGGAAGAATTTTAGAAAGAACCTCAGAA 37 37
+CRISPRs 365 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC AACTAAGGCATCCCATAGCATTCCGCTACGATCTATCAG 37 39
+CRISPRs 441 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC TAATAATTGCTGATTAATCGTGGTGGTGGTGGTGG 37 35
+CRISPRs 513 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC GATATATGGCTAAATATTGCTCAAAAGATTTTAATA 37 36
+CRISPRs 586 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC ATTAGATTGGTCGTGTTTTGATTAACGGTGCTAGC 37 35
+CRISPRs 658 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC TTGCCATCCCAGGCAACATAGCAAGCATGGAGGTG 37 35
+CRISPRs 730 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC TTGCCATCCCAGGCAACATAGCAAGCATGGAGGTG 37 35
+CRISPRs 802 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC TTGCGGACAGACTCGATTAAGTCAATAACAGCTTGG 37 36
+CRISPRs 875 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC CTTGCCCTAATTTTCCTGGTGGAAAAGCCGCTGGCT 37 36
+CRISPRs 948 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC ATAGCAAGTTGCTAGAGAAAGCGCAACAAAACAAG 37 35
+CRISPRs 1020 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC GAGGTTAAATTGTTGTCGATTCAAGAAGACTTGA 37 34
+CRISPRs 1091 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC AATAGACACGAATTCCGGTTCCAGACCCAGCCCGTT 37 36
+CRISPRs 1164 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC TTCTTCCATCAGTCCAAGTTCTTCAACAATGTCTA 37 35
+CRISPRs 1236 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC TGCTGAAGAAGCTGGAGAGAATCGGGCATCGCTAT 37 35
+CRISPRs 1308 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC ATTCCAGATGTGGTGGAAGAAACCTACGCCCCCGA 37 35
+CRISPRs 1380 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC AATCAGCTTCCGGCGTTGCCATTTGGATTCAA 37 32
+CRISPRs 1449 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC GTGAGGGGGCCAGATCCCTGCCAGATCCCCCAAT 37 34
+CRISPRs 1520 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC ATTAGATCTTTGGCATAAGGCAACCGAAACTGATC 37 35
+CRISPRs 1592 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC GATTATCGTGCTTCCTTCGATGCTAACTTTGCTCT 37 35
+CRISPRs 1664 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC TCCATAATGATTCTGCCTCGTTTCTACTTGGTTTA 37 35
+CRISPRs 1736 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC TGTATGTCACGCCATCGGACAGGTAGGGAAAGCCTGG 37 37
+CRISPRs 1810 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC CAACTGGCTAAGCTGGTCATAAGGCTTTGGGAATGAAA 37 38
+CRISPRs 1885 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC TCGGGTTTCCCTCCTGGGTAATGACGCCTACGGG 37 34
+CRISPRs 1956 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC CAAAGCTGGCACGGAAGCCCTTAAGGATATCCTC 37 34
+CRISPRs 2027 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC GATGCAGAGATTCCACCACCAAAGGAGAATCCGATAA 37 37
+CRISPRs 2101 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC AAAGATTGGGACTTTTAACTGCAAAATACCAGGCTAG 37 37
+CRISPRs 2175 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC ATTTGTTGGGCCATCCTGCCCTGTCCATTGAGGTTAAGCGG 37 41
+CRISPRs 2253 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC AAAGATTGGGACTTTTAACTGCAAAATACCAGGCTAG 37 37
+CRISPRs 2327 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC ATTTGTTGGGCCATCCTGCCCTGTCCATTGAGGTTAAGCGG 37 41
+CRISPRs 2405 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC AAGTAAGGTTCAAACGCCGCTACGCAGTCTGGTCC 37 35
+CRISPRs 2477 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC CAAAGTTGGAACGAAAGCTAACGACAAAAACTA 37 33
+CRISPRs 2547 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC TTTAGCCATCGTCGGATTCTAATCGATCCAAAAGTCGG 37 38
+CRISPRs 2622 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC AATCCTACCAAGCGGCTTTTGGTGGGCCTGGCTCCGA 37 37
+CRISPRs 2696 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC TTCGGTTGATTGATGAAGATCTGATCGTCGAGTGGT 37 36
+CRISPRs 2769 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC TCCCTTTTCGGGGATAGGTGGTGTCCCTTTTCGG 37 34
+CRISPRs 2840 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC ACTACCAGGGGGAAATTGATGGTATTCCCGGCAAA 37 35
+CRISPRs 2912 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC ACTACCAGGGGGAAATTGATGGTATTCCCGGCAAA 37 35
+CRISPRs 2984 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC GGGCAATGTTAAGCATGGCTAGAAGGAATAGTTAAC 37 36
+CRISPRs 3057 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC TTCCATTAATGATTCTTCAAAAATCACTCGATT 37 33
+CRISPRs 3127 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC ACTGTTACTAGCCACCGCCCAACTCCTTTAATACTT 37 36
+CRISPRs 3200 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC TCTTCTGTTACGTAGATTTTTCCTGTTTCGCCAACAG 37 37
+CRISPRs 3274 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC CATCGCTCCCAGCATATTGTCCTGAACGGTCGGCAAT 37 37
+CRISPRs 3348 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC GATTTTTCCAGTGATGGTGCATACCTAGCCGTAG 37 34
+CRISPRs 3419 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC TAGTCCCTCCCACACTGCCAATATTTCTTCAT 37 32
+CRISPRs 3488 CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAAC TCCGTCTGTATGACTTATACTCGCAAGGATT 37 31
+CRISPRs 3725 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC TGTAGTAGAACCAATCGGGGTCGTCAATAACTCCCG 37 36
+CRISPRs 3798 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC CGGGGCTTGGGGGGTTGGAGTCCCCGCCCCCGTGGTGGGA 37 40
+CRISPRs 3875 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC TGTGAGTTGCATAATGCCTCCTAATGGCTGTTGGACTCATAA 37 42
+CRISPRs 3954 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC CTTGGTATTTGTAGTTCTCGATGAGTGTTTTAGGCA 37 36
+CRISPRs 4027 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC TGATAACGGGATGCCAGCCCTAAAGGTGATGAGCGG 37 36
+CRISPRs 4100 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC CGTTATCCGGCAAAGAAACCACACTACTAAGCTCGACAA 37 39
+CRISPRs 4176 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC TGGGCCGGGCGCGAGTTGTCCTCCTGTCCGAGGCCCCAC 37 39
+CRISPRs 4252 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC CGTTATCCGGCAAAGAAACCACACTACTAAGCTCGACAA 37 39
+CRISPRs 4328 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC TGGGCCGGGCGCGAGTTGTCCTCCTGTCCGAGGCCCCAC 37 39
+CRISPRs 4404 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC CTATTAAGGCTATTTTCGCCACTTCTGTTTGAAAG 37 35
+CRISPRs 4476 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC GTCACACCTCTTCACGAATCCTCACATCATGAATAAGCTGCACA 37 44
+CRISPRs 4557 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC CGCGGGTCGAGATGTCGCTGGACACGCTGGTGCCGGACA 37 39
+CRISPRs 4633 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC CTGGGCGGACTGGAGTTGCCACCTGCCGATGGCCTGCA 37 38
+CRISPRs 4708 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC GAGCCAAAGTCAACTAGCACAGGCACGGCAAGCCATCCTGA 37 41
+CRISPRs 4786 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC TCGTGCATCTGCGCATAGGAAGAGGTTAATTCCTCAAC 37 38
+CRISPRs 4861 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC AACGGGCAGCCCGAGTGGTGGGCATCGAGGTGGTGCTC 37 38
+CRISPRs 4936 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC CCCCGCCACATTTTCGGATTAGAGGATTTGAATCGGCCGT 37 40
+CRISPRs 5013 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC AGTTTCTCAAACTTTTCGGCGATCGCCGTCCAGGTGAGTTGA 37 42
+CRISPRs 5092 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC TAGCGAAAAGTTATAGTTACCTTTGACCGGAGCTACCAACTCA 37 43
+CRISPRs 5172 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC CCCCGCTGCCACGAGGGCAGCTGTAGACGCACCCC 37 35
+CRISPRs 5244 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC TTAAATATACCCATCCCTAATAAAGGATAGAGATCTTGCA 37 40
+CRISPRs 5321 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC GCTCTATTCTAATAACCCAAGCTTTTTTCAATTCTAA 37 37
+CRISPRs 5395 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC CCGCTTGGTAGGATTGACCACCAAAGCTAGAAACAGGCACA 37 41
+CRISPRs 5473 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC AGGGCGGTTAATCACTAGCGGCGATCTAGATATTG 37 35
+CRISPRs 5545 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC TAGACTTCTATTTCCCCTCTTGCCGAGGGATGATACTGCAATTGA 37 45
+CRISPRs 5627 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC TGCGCTCTCTTATCAAACGCCGCAACGCCATCAAGGCT 37 38
+CRISPRs 5702 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC ACGAGCGGAATCTTCTATGGATCGGATCACATCCTTAAT 37 39
+CRISPRs 5778 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC CTGGTGTCGGGGTTGTAGTATTCGTCTCGGTACAACA 37 37
+CRISPRs 5852 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC ACTATAGGGAGCGTTACCCTAGCTAGACATTGCCTAATCT 37 40
+CRISPRs 5929 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC AAGAAGCAGAATAATGCGATTGAGTGGACAAAAATAAGAA 37 40
+CRISPRs 6006 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC GGTTACGTATCGGCGTAACCGCCACTCCTTAGAG 37 34
+CRISPRs 6077 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC CGCCTCCTGCGCCCTGGAGGGGTGATCCTACACCTCGCG 37 39
+CRISPRs 6153 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC GATTCTGGTATACGTTTATCCCACCACTCCTTAGCT 37 36
+CRISPRs 6226 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC CTCGTAAGCTAGGCAACGGCCTTGCTCGATGCACA 37 35
+CRISPRs 6298 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC GGTGCAGCTGCGCCTAAGGAGATGGCTGTACAAGCT 37 36
+CRISPRs 6371 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC CACCTAGAGGGTACCTCCCGGTTAGACCGGGGCTCTTAT 37 39
+CRISPRs 6447 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC AACATGGCCACAACAACCTTCCCGGAGCAAGGGATG 37 36
+CRISPRs 6520 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC GGCGATATTTGGCGTGCCAGCCAAGTGAATTTTGGCGCTG 37 40
+CRISPRs 6597 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC AACATGGCCACAACAACCTTCCCGGAGCAAGGGATG 37 36
+CRISPRs 6670 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC GGCGATATTTGGCGTGCCAGCCAAGTGAATTTTGGCGCTG 37 40
+CRISPRs 6747 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC CTAGCCTTTGTGGCTAACCCTCCTGCGCTTTGACATATAG 37 40
+CRISPRs 6824 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC TTTTACCTCTTGCTCCTGCACAAGCTCAGCCTTAA 37 35
+CRISPRs 6896 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC TCCTCCTCGCCTCTGAGAAAGAGTATGAAACACTGT 37 36
+CRISPRs 6969 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC ATGAACAGATTGCCATCTTCTAGGCGGATAGCCTGGG 37 37
+CRISPRs 7043 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC CGCCCATTGTTTGTGCTTCCGGAAGAAGTCTTTCAACTTC 37 40
+CRISPRs 7120 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC GTTATCACGAGTTATCTTGCGCAAATCTTGTAGTGCATCTTTT 37 43
+CRISPRs 7200 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC TTTAGCGGAGGAGACCTCTTCTATTTCTCCTATAACC 37 37
+CRISPRs 7274 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC GGGAGAACCCTAAAAAGTTCTCCTGTCTAATCGCCACCTGT 37 41
+CRISPRs 7352 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC CGCTCCAGAGTGCGCCGCCGCCGAATTGCGGTCCA 37 35
+CRISPRs 7424 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC GAGACTCTATCTTTGGAGTTTCTAAGACATTGGCGGTTTCTAGGG 37 45
+CRISPRs 7506 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC ATTGCTTGGCGTAGGTTGACTTACCCGAGCCTGGGAGACCA 37 41
+CRISPRs 7584 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC TCCAAGGGCTCTTCGTCTTCAAAGGCCTTAGTTACCTCTG 37 40
+CRISPRs 7661 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC ATAATAAAGCACCCTCAACGGACTATGCCATGAACAACAGGACCC 37 45
+CRISPRs 7743 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC GTTGCCAGTTTTGCCGTTTTTGCTGTTCTGAGAT 37 34
+CRISPRs 7814 GTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAAC CCCATAATAATTAGGCTCGCTACCATAAGGGGAAACTTCTTCCAAG 37 46
+CRISPRs 7945 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CCTTTAGGTGGGCGTTGACCTTTAGATTAGGAATGGT 35 37
+CRISPRs 8017 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CAGCGCCACAGCTGACAGAGTTCCTGAAGGAAGCTAA 35 37
+CRISPRs 8089 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CCTGAGTGATTTTTATCAATTGTCGAGCTTAGTAGT 35 36
+CRISPRs 8160 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CACAGGAGTGTTAGCGCACTGCCTGTCATTACTATTA 35 37
+CRISPRs 8232 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CTTAGATTGCGGGGGCTAGTGACGCCATAGTTTAACGACA 35 40
+CRISPRs 8307 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CAAAGATATTAGGCTATCCTTCGGGGTAGTCTTTCTT 35 37
+CRISPRs 8379 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CAAGTGTTGTTGCCTAGTGTTATACCAGAATATCCC 35 36
+CRISPRs 8450 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CCTCATTAGTGCTATCTTCTTGTTGATGGATTAGAACA 35 38
+CRISPRs 8523 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CTCTACTCTGGTGAAGACCAAGTGGATTTCGTGGTGAT 35 38
+CRISPRs 8596 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CGTTAGTGCTTGGTTGTGGTTATGCTGCAACTAAGCC 35 37
+CRISPRs 8668 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CATCGATATACTTTTTAGCATCAGCTAAATGATAAAAA 35 38
+CRISPRs 8741 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CTTAGAAAGTTTTGGTTAGTTTCCATTCCTCTTTTT 35 36
+CRISPRs 8812 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CTTTCTCCATTGTTAGTTAGTCATTTCCTTGACAATT 35 37
+CRISPRs 8884 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CTGGGATTCATGAACATGTTGATGGTGAATTATACCT 35 37
+CRISPRs 8956 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CTGATTAAATTAATATGCGTGATAGATTAACTCATTTTGGTT 35 42
+CRISPRs 9033 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CTTTTTTGGCATAACTCAGTAAGTCTTTTTTGTTTA 35 36
+CRISPRs 9104 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CAATACTAATCTTAAAGATCTTGGTTTAATTACATATCGT 35 40
+CRISPRs 9179 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CAACAATTGCAAGGTTTATAAGTAAATGAACAACAACG 35 38
+CRISPRs 9252 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CAAATCCAACAACTTCTCCACATTTACTCCACTAGTCTC 35 39
+CRISPRs 9326 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CCTCCTACTTGTGCAGCCTCTAGTCCGCTTTTTAGATTGCG 35 41
+CRISPRs 9402 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CGCTTCGCTTCTTTCGCTTTCTCAACATAAAACTCATGAT 35 40
+CRISPRs 9477 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CCTAAAGTATGGTAACTCTGGGTAATTTTTTAACAG 35 36
+CRISPRs 9548 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CCTTATCTTTTTCTAGCGTAACAAAAGAATAATCAGGA 35 38
+CRISPRs 9621 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CTTTCAACCAAAAGCTTATTGGCTTCTACGGACTCACGAGC 35 41
+CRISPRs 9697 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CTCTGAACTACTTTTTTTTCAACGACTTCACCATGGGAAG 35 40
+CRISPRs 9772 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CAGTTTTAGATGCACCAATTACATCTTCTTCCATAAAGGA 35 40
+CRISPRs 9847 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CATTCAAGACCTCCGGTGGTCAGAAGACTGTAGCAACAAAGCTTGAG 35 47
+CRISPRs 9929 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CTAGATCAGGCATCCAAACTCTTGGGCGATGTCGCGTAAC 35 40
+CRISPRs 10004 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CCGATGTAGCTCATAGCGACCTCGATAATTAATTGAT 35 37
+CRISPRs 10076 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CACCAAGCTAGTCACTATCCGATCAACCGTCGTTGCAGGT 35 40
+CRISPRs 10151 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CTATCAAGAGTTGTCTAGTCAGTTCCAAGAAAAACCCTGGGAG 35 43
+CRISPRs 10229 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CTGACCTGATTCCTCGAGAATTGAGACTCCTAAAGAAATTGC 35 42
+CRISPRs 10306 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CAGTTCCAGTCGTGCTCCAAGGGCTCTTCGTCTTCA 35 36
+CRISPRs 10377 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CAACTTTGGAAAATTGCCTTCATACCATTCTTTTGTTAAACCGTTGTT 35 48
+CRISPRs 10460 GTCTCCACTCGCAGGAGAAATTAATTGATTGGAAA CAGCAACAAAACAGCCAGCAGCAATTAATAAATCAGTT 35 38
+CRISPRs 10533 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CACTCCGTGGCGTCGTACCGGTACGCCTGGGCTTCGTCCA 35 40
+CRISPRs 10608 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CTGAAATAACCCCCATAGCGGTGGCCATGGGGGCGTTTTACTAA 35 44
+CRISPRs 10687 GTCTCCACTCGTAGGAGAAATTAATTGATTGGAAA CATATCTGTTAGCTCAATTTGAGCAAGTTCATCATTTTTTA 35 41
diff -r 000000000000 -r ad026c2db3e9 test-data/sequence.fasta
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/sequence.fasta Fri May 02 06:14:11 2014 -0400
@@ -0,0 +1,2 @@
+>CRISPRs
+CTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACGATTGTTGTGCCCCTGGCGGTCGCTTTCAATGCCTCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACTAATCCTAATTAGGTTTGAGTTAGTATCTAGTGCCATCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACACAGATTTTGCTTCAGCTAGTACCAAAGGCTAGCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACTCGTAACTACCTTCTAAGTCTGTAGCGATGAATGTGGCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACCAAAATATAGGGAAGAATTTTAGAAAGAACCTCAGAACTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACAACTAAGGCATCCCATAGCATTCCGCTACGATCTATCAGCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACTAATAATTGCTGATTAATCGTGGTGGTGGTGGTGGCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACGATATATGGCTAAATATTGCTCAAAAGATTTTAATACTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACATTAGATTGGTCGTGTTTTGATTAACGGTGCTAGCCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACTTGCCATCCCAGGCAACATAGCAAGCATGGAGGTGCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACTTGCCATCCCAGGCAACATAGCAAGCATGGAGGTGCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACTTGCGGACAGACTCGATTAAGTCAATAACAGCTTGGCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACCTTGCCCTAATTTTCCTGGTGGAAAAGCCGCTGGCTCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACATAGCAAGTTGCTAGAGAAAGCGCAACAAAACAAGCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACGAGGTTAAATTGTTGTCGATTCAAGAAGACTTGACTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACAATAGACACGAATTCCGGTTCCAGACCCAGCCCGTTCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACTTCTTCCATCAGTCCAAGTTCTTCAACAATGTCTACTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACTGCTGAAGAAGCTGGAGAGAATCGGGCATCGCTATCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACATTCCAGATGTGGTGGAAGAAACCTACGCCCCCGACTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACAATCAGCTTCCGGCGTTGCCATTTGGATTCAACTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACGTGAGGGGGCCAGATCCCTGCCAGATCCCCCAATCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACATTAGATCTTTGGCATAAGGCAACCGAAACTGATCCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACGATTATCGTGCTTCCTTCGATGCTAACTTTGCTCTCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACTCCATAATGATTCTGCCTCGTTTCTACTTGGTTTACTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACTGTATGTCACGCCATCGGACAGGTAGGGAAAGCCTGGCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACCAACTGGCTAAGCTGGTCATAAGGCTTTGGGAATGAAACTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACTCGGGTTTCCCTCCTGGGTAATGACGCCTACGGGCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACCAAAGCTGGCACGGAAGCCCTTAAGGATATCCTCCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACGATGCAGAGATTCCACCACCAAAGGAGAATCCGATAACTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACAAAGATTGGGACTTTTAACTGCAAAATACCAGGCTAGCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACATTTGTTGGGCCATCCTGCCCTGTCCATTGAGGTTAAGCGGCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACAAAGATTGGGACTTTTAACTGCAAAATACCAGGCTAGCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACATTTGTTGGGCCATCCTGCCCTGTCCATTGAGGTTAAGCGGCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACAAGTAAGGTTCAAACGCCGCTACGCAGTCTGGTCCCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACCAAAGTTGGAACGAAAGCTAACGACAAAAACTACTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACTTTAGCCATCGTCGGATTCTAATCGATCCAAAAGTCGGCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACAATCCTACCAAGCGGCTTTTGGTGGGCCTGGCTCCGACTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACTTCGGTTGATTGATGAAGATCTGATCGTCGAGTGGTCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACTCCCTTTTCGGGGATAGGTGGTGTCCCTTTTCGGCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACACTACCAGGGGGAAATTGATGGTATTCCCGGCAAACTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACACTACCAGGGGGAAATTGATGGTATTCCCGGCAAACTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACGGGCAATGTTAAGCATGGCTAGAAGGAATAGTTAACCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACTTCCATTAATGATTCTTCAAAAATCACTCGATTCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACACTGTTACTAGCCACCGCCCAACTCCTTTAATACTTCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACTCTTCTGTTACGTAGATTTTTCCTGTTTCGCCAACAGCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACCATCGCTCCCAGCATATTGTCCTGAACGGTCGGCAATCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACGATTTTTCCAGTGATGGTGCATACCTAGCCGTAGCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACTAGTCCCTCCCACACTGCCAATATTTCTTCATCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACTCCGTCTGTATGACTTATACTCGCAAGGATTCTTTCCTTCTACTAATCCCGGCGATCGGGACTGAAACNNNNNNNNATAGCCAAAAATAAGGCTTTTATTGTTATGTTTTCAGTACGTAACAAATCGTTAAACGTCTACCTCTTGTTTGGCGGATTGGCACCTCGAAAACCGCATACAGACTGTTTTTCAGTGTGATAGGGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACTGTAGTAGAACCAATCGGGGTCGTCAATAACTCCCGGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACCGGGGCTTGGGGGGTTGGAGTCCCCGCCCCCGTGGTGGGAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACTGTGAGTTGCATAATGCCTCCTAATGGCTGTTGGACTCATAAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACCTTGGTATTTGTAGTTCTCGATGAGTGTTTTAGGCAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACTGATAACGGGATGCCAGCCCTAAAGGTGATGAGCGGGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACCGTTATCCGGCAAAGAAACCACACTACTAAGCTCGACAAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACTGGGCCGGGCGCGAGTTGTCCTCCTGTCCGAGGCCCCACGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACCGTTATCCGGCAAAGAAACCACACTACTAAGCTCGACAAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACTGGGCCGGGCGCGAGTTGTCCTCCTGTCCGAGGCCCCACGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACCTATTAAGGCTATTTTCGCCACTTCTGTTTGAAAGGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACGTCACACCTCTTCACGAATCCTCACATCATGAATAAGCTGCACAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACCGCGGGTCGAGATGTCGCTGGACACGCTGGTGCCGGACAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACCTGGGCGGACTGGAGTTGCCACCTGCCGATGGCCTGCAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACGAGCCAAAGTCAACTAGCACAGGCACGGCAAGCCATCCTGAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACTCGTGCATCTGCGCATAGGAAGAGGTTAATTCCTCAACGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACAACGGGCAGCCCGAGTGGTGGGCATCGAGGTGGTGCTCGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACCCCCGCCACATTTTCGGATTAGAGGATTTGAATCGGCCGTGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACAGTTTCTCAAACTTTTCGGCGATCGCCGTCCAGGTGAGTTGAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACTAGCGAAAAGTTATAGTTACCTTTGACCGGAGCTACCAACTCAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACCCCCGCTGCCACGAGGGCAGCTGTAGACGCACCCCGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACTTAAATATACCCATCCCTAATAAAGGATAGAGATCTTGCAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACGCTCTATTCTAATAACCCAAGCTTTTTTCAATTCTAAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACCCGCTTGGTAGGATTGACCACCAAAGCTAGAAACAGGCACAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACAGGGCGGTTAATCACTAGCGGCGATCTAGATATTGGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACTAGACTTCTATTTCCCCTCTTGCCGAGGGATGATACTGCAATTGAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACTGCGCTCTCTTATCAAACGCCGCAACGCCATCAAGGCTGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACACGAGCGGAATCTTCTATGGATCGGATCACATCCTTAATGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACCTGGTGTCGGGGTTGTAGTATTCGTCTCGGTACAACAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACACTATAGGGAGCGTTACCCTAGCTAGACATTGCCTAATCTGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACAAGAAGCAGAATAATGCGATTGAGTGGACAAAAATAAGAAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACGGTTACGTATCGGCGTAACCGCCACTCCTTAGAGGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACCGCCTCCTGCGCCCTGGAGGGGTGATCCTACACCTCGCGGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACGATTCTGGTATACGTTTATCCCACCACTCCTTAGCTGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACCTCGTAAGCTAGGCAACGGCCTTGCTCGATGCACAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACGGTGCAGCTGCGCCTAAGGAGATGGCTGTACAAGCTGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACCACCTAGAGGGTACCTCCCGGTTAGACCGGGGCTCTTATGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACAACATGGCCACAACAACCTTCCCGGAGCAAGGGATGGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACGGCGATATTTGGCGTGCCAGCCAAGTGAATTTTGGCGCTGGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACAACATGGCCACAACAACCTTCCCGGAGCAAGGGATGGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACGGCGATATTTGGCGTGCCAGCCAAGTGAATTTTGGCGCTGGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACCTAGCCTTTGTGGCTAACCCTCCTGCGCTTTGACATATAGGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACTTTTACCTCTTGCTCCTGCACAAGCTCAGCCTTAAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACTCCTCCTCGCCTCTGAGAAAGAGTATGAAACACTGTGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACATGAACAGATTGCCATCTTCTAGGCGGATAGCCTGGGGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACCGCCCATTGTTTGTGCTTCCGGAAGAAGTCTTTCAACTTCGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACGTTATCACGAGTTATCTTGCGCAAATCTTGTAGTGCATCTTTTGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACTTTAGCGGAGGAGACCTCTTCTATTTCTCCTATAACCGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACGGGAGAACCCTAAAAAGTTCTCCTGTCTAATCGCCACCTGTGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACCGCTCCAGAGTGCGCCGCCGCCGAATTGCGGTCCAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACGAGACTCTATCTTTGGAGTTTCTAAGACATTGGCGGTTTCTAGGGGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACATTGCTTGGCGTAGGTTGACTTACCCGAGCCTGGGAGACCAGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACTCCAAGGGCTCTTCGTCTTCAAAGGCCTTAGTTACCTCTGGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACATAATAAAGCACCCTCAACGGACTATGCCATGAACAACAGGACCCGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACGTTGCCAGTTTTGCCGTTTTTGCTGTTCTGAGATGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACCCCATAATAATTAGGCTCGCTACCATAAGGGGAAACTTCTTCCAAGGTTCAACACCCTCTTTTCCCCGTCAGGGGACTGAAACNNNNNNNNNNNGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACCTTTAGGTGGGCGTTGACCTTTAGATTAGGAATGGTGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACAGCGCCACAGCTGACAGAGTTCCTGAAGGAAGCTAAGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACCTGAGTGATTTTTATCAATTGTCGAGCTTAGTAGTGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACACAGGAGTGTTAGCGCACTGCCTGTCATTACTATTAGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACTTAGATTGCGGGGGCTAGTGACGCCATAGTTTAACGACAGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACAAAGATATTAGGCTATCCTTCGGGGTAGTCTTTCTTGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACAAGTGTTGTTGCCTAGTGTTATACCAGAATATCCCGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACCTCATTAGTGCTATCTTCTTGTTGATGGATTAGAACAGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACTCTACTCTGGTGAAGACCAAGTGGATTTCGTGGTGATGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACGTTAGTGCTTGGTTGTGGTTATGCTGCAACTAAGCCGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACATCGATATACTTTTTAGCATCAGCTAAATGATAAAAAGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACTTAGAAAGTTTTGGTTAGTTTCCATTCCTCTTTTTGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACTTTCTCCATTGTTAGTTAGTCATTTCCTTGACAATTGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACTGGGATTCATGAACATGTTGATGGTGAATTATACCTGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACTGATTAAATTAATATGCGTGATAGATTAACTCATTTTGGTTGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACTTTTTTGGCATAACTCAGTAAGTCTTTTTTGTTTAGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACAATACTAATCTTAAAGATCTTGGTTTAATTACATATCGTGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACAACAATTGCAAGGTTTATAAGTAAATGAACAACAACGGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACAAATCCAACAACTTCTCCACATTTACTCCACTAGTCTCGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACCTCCTACTTGTGCAGCCTCTAGTCCGCTTTTTAGATTGCGGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACGCTTCGCTTCTTTCGCTTTCTCAACATAAAACTCATGATGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACCTAAAGTATGGTAACTCTGGGTAATTTTTTAACAGGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACCTTATCTTTTTCTAGCGTAACAAAAGAATAATCAGGAGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACTTTCAACCAAAAGCTTATTGGCTTCTACGGACTCACGAGCGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACTCTGAACTACTTTTTTTTCAACGACTTCACCATGGGAAGGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACAGTTTTAGATGCACCAATTACATCTTCTTCCATAAAGGAGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACATTCAAGACCTCCGGTGGTCAGAAGACTGTAGCAACAAAGCTTGAGGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACTAGATCAGGCATCCAAACTCTTGGGCGATGTCGCGTAACGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACCGATGTAGCTCATAGCGACCTCGATAATTAATTGATGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACACCAAGCTAGTCACTATCCGATCAACCGTCGTTGCAGGTGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACTATCAAGAGTTGTCTAGTCAGTTCCAAGAAAAACCCTGGGAGGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACTGACCTGATTCCTCGAGAATTGAGACTCCTAAAGAAATTGCGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACAGTTCCAGTCGTGCTCCAAGGGCTCTTCGTCTTCAGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACAACTTTGGAAAATTGCCTTCATACCATTCTTTTGTTAAACCGTTGTTGTCTCCACTCGCAGGAGAAATTAATTGATTGGAAACAGCAACAAAACAGCCAGCAGCAATTAATAAATCAGTTGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACACTCCGTGGCGTCGTACCGGTACGCCTGGGCTTCGTCCAGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACTGAAATAACCCCCATAGCGGTGGCCATGGGGGCGTTTTACTAAGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAACATATCTGTTAGCTCAATTTGAGCAAGTTCATCATTTTTTAGTCTCCACTCGTAGGAGAAATTAATTGATTGGAAAC
diff -r 000000000000 -r ad026c2db3e9 tool_dependencies.xml
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/tool_dependencies.xml Fri May 02 06:14:11 2014 -0400
@@ -0,0 +1,25 @@
+
+
+
+ $REPOSITORY_INSTALL_DIR
+
+
+
+
+ http://www.room220.com/crt/CRT1.2-CLI.jar.zip
+
+ .
+ $INSTALL_DIR
+
+
+ $INSTALL_DIR
+
+
+
+
+
+
+
+
+
+