Mercurial > repos > rnateam > kinwalker

changeset 1:723f1a32ad85 draft

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Uploaded
author rnateam
date Thu, 26 Feb 2015 12:38:04 -0500
parents f334718d8063
children 8f32d59f5606
files kinwalker.xml test-data/mfe_struct.fasta test-data/mfe_struct_result.fasta test-data/test_sequence.fasta test-data/test_sequence_input.fasta test-data/trajectory.tabular test-data/trajectory_result.tabular
diffstat 7 files changed, 18 insertions(+), 18 deletions(-) [+]
line wrap: on
line diff
--- a/kinwalker.xml	Thu Feb 26 11:54:49 2015 -0500
+++ b/kinwalker.xml	Thu Feb 26 12:38:04 2015 -0500
@@ -102,7 +102,7 @@
     </outputs>
     <tests>
         <test>
-            <param name="input_sequence" value="test_sequence.fasta" />
+            <param name="input_sequence" value="test_sequence_input.fasta" />
             <param name="init_structure" value="" />
             <param name="interrupt" value="" />
             <param name="used" value="M" />
@@ -113,8 +113,8 @@
             <param name="transcribed" value="1" />
             <param name="transcription_rate" value="200" />
             <param name="windowsize" value="0" />
-            <output name="mfe_struct" file="mfe_struct.fasta" />
-            <output name="trajectory" file="trajectory.tabular" />
+            <output name="mfe_struct" file="mfe_struct_result.fasta" />
+            <output name="trajectory" file="trajectory_result.tabular" />
         </test>
     </tests>
     <help>
--- a/test-data/mfe_struct.fasta	Thu Feb 26 11:54:49 2015 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,3 +0,0 @@
->test_seq mfe: -13.6
-ACAGGUUCGCCUGUGUUGCGAACCUGCGGGUUCG
-.(((((((((.......)))))))))........
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/mfe_struct_result.fasta	Thu Feb 26 12:38:04 2015 -0500
@@ -0,0 +1,3 @@
+>test_seq mfe: -13.6
+ACAGGUUCGCCUGUGUUGCGAACCUGCGGGUUCG
+.(((((((((.......)))))))))........
--- a/test-data/test_sequence.fasta	Thu Feb 26 11:54:49 2015 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,2 +0,0 @@
->test_seq
-ACAGGUUCGCCUGUGUUGCGAACCUGCGGGUUCG
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/test_sequence_input.fasta	Thu Feb 26 12:38:04 2015 -0500
@@ -0,0 +1,2 @@
+>test_seq
+ACAGGUUCGCCUGUGUUGCGAACCUGCGGGUUCG
--- a/test-data/trajectory.tabular	Thu Feb 26 11:54:49 2015 -0500
+++ /dev/null	Thu Jan 01 00:00:00 1970 +0000
@@ -1,10 +0,0 @@
-..(((....)))	-0.4	0.0550686	3.9	6.46108	12	
-.((((....))))	-3	0.0600001	5.96046e-09	6.46108	13
-(((((....)))))	-4.7	0.065	0	6.46108	14
-(((((....)))))..((((....))))	-5.3	0.135069	3.9	6.46108	28
-(((((....))))).(((((....)))))	-5.8	0.14	1.90735e-07	6.46108	29
-(((((....))))).......(((....)))...	-6.9	0.17246	6.7	7.46108	34
-(((((....)))))......((((....))))..	-7.8	0.17246	9.53674e-08	7.46108	34
-(((((....))))).....(((((....))))).	-10.7	0.17246	1.90735e-07	7.46108	34
-(((((....)))))....((((((....))))))	-13.1	0.17246	-1.90735e-07	7.46108	34
-.(((((((((.......)))))))))........	-13.6	123.457	12.5	13	34
--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/trajectory_result.tabular	Thu Feb 26 12:38:04 2015 -0500
@@ -0,0 +1,10 @@
+..(((....)))	-0.4	0.0550686	3.9	6.46108	12	
+.((((....))))	-3	0.0600001	5.96046e-09	6.46108	13
+(((((....)))))	-4.7	0.065	0	6.46108	14
+(((((....)))))..((((....))))	-5.3	0.135069	3.9	6.46108	28
+(((((....))))).(((((....)))))	-5.8	0.14	1.90735e-07	6.46108	29
+(((((....))))).......(((....)))...	-6.9	0.17246	6.7	7.46108	34
+(((((....)))))......((((....))))..	-7.8	0.17246	9.53674e-08	7.46108	34
+(((((....))))).....(((((....))))).	-10.7	0.17246	1.90735e-07	7.46108	34
+(((((....)))))....((((((....))))))	-13.1	0.17246	-1.90735e-07	7.46108	34
+.(((((((((.......)))))))))........	-13.6	123.457	12.5	13	34