# HG changeset patch
# User greg
# Date 1511288608 18000
# Node ID fc6f39767c833b6976cf2e6d113b1574b7a66192
# Parent bc1e9eb54f3ca6861d80045abe32caf638f63dc0
Uploaded
diff -r bc1e9eb54f3c -r fc6f39767c83 ideas_genome_tracks.R
--- a/ideas_genome_tracks.R Tue Nov 21 09:04:59 2017 -0500
+++ b/ideas_genome_tracks.R Tue Nov 21 13:23:28 2017 -0500
@@ -88,12 +88,12 @@
create_primary_html = function(output_trackhub, tracks_dir) {
track_files <- list.files(path=tracks_dir);
- s <- paste('\n\n\n\n\n', sep="");
+ s <- paste('\n \n \n \n \n', sep="");
for (i in 1:length(track_files)) {
track_file <- paste("tracks", track_files[i], sep="/");
- s <- paste(s, '- \n', track_file, '\n
', sep="");
+ s <- paste(s, ' - ', track_file, '
\n', sep="");
}
- s <- paste(s, '
\n\n', sep="");
+ s <- paste(s, '
\n \n', sep="");
cat(s, file=output_trackhub);
}
diff -r bc1e9eb54f3c -r fc6f39767c83 ideas_genome_tracks.xml
--- a/ideas_genome_tracks.xml Tue Nov 21 09:04:59 2017 -0500
+++ b/ideas_genome_tracks.xml Tue Nov 21 13:23:28 2017 -0500
@@ -48,7 +48,7 @@
#end if
-w '$output_trackhub'
-x '$output_trackhub.files_path'
-&>/dev/null
+&>proc.log
]]>
@@ -62,7 +62,7 @@
-
+
@@ -77,6 +77,20 @@
+
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diff -r bc1e9eb54f3c -r fc6f39767c83 test-data/IDEAS_out.cluster
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/IDEAS_out.cluster Tue Nov 21 13:23:28 2017 -0500
@@ -0,0 +1,1 @@
+id0 0:0
diff -r bc1e9eb54f3c -r fc6f39767c83 test-data/IDEAS_out.para
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/IDEAS_out.para Tue Nov 21 13:23:28 2017 -0500
@@ -0,0 +1,2 @@
+#count h3k4me3 h3k4me3*h3k4me3
+60.000000 0.000000 10.000000
diff -r bc1e9eb54f3c -r fc6f39767c83 test-data/IDEAS_out.profile
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/IDEAS_out.profile Tue Nov 21 13:23:28 2017 -0500
@@ -0,0 +1,2 @@
+1 0.958910
+49 0.980769
diff -r bc1e9eb54f3c -r fc6f39767c83 test-data/IDEAS_out.state
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/IDEAS_out.state Tue Nov 21 13:23:28 2017 -0500
@@ -0,0 +1,51 @@
+#ID CHR POSst POSed e001 PosClass
+R100001 chr1 21819600 21819800 0 0
+R100002 chr1 21819800 21820000 0 1
+R100003 chr1 21820000 21820200 0 1
+R100004 chr1 21820200 21820400 0 1
+R100005 chr1 21820400 21820600 0 1
+R100006 chr1 21820600 21820800 0 1
+R100007 chr1 21820800 21821000 0 1
+R100008 chr1 21821000 21821200 0 1
+R100009 chr1 21821200 21821400 0 1
+R100010 chr1 21821400 21821600 0 1
+R100011 chr1 21821600 21821800 0 1
+R100012 chr1 21821800 21822000 0 1
+R100013 chr1 21822000 21822200 0 1
+R100014 chr1 21822200 21822400 0 1
+R100015 chr1 21822400 21822600 0 1
+R100016 chr1 21822600 21822800 0 1
+R100017 chr1 21822800 21823000 0 1
+R100018 chr1 21823000 21823200 0 1
+R100019 chr1 21823200 21823400 0 1
+R100020 chr1 21823400 21823600 0 1
+R100021 chr1 21823600 21823800 0 1
+R100022 chr1 21823800 21824000 0 1
+R100023 chr1 21824000 21824200 0 1
+R100024 chr1 21824200 21824400 0 1
+R100025 chr1 21824400 21824600 0 1
+R100026 chr1 21824600 21824800 0 1
+R100027 chr1 21824800 21825000 0 1
+R100028 chr1 21825000 21825200 0 1
+R100029 chr1 21825200 21825400 0 1
+R100030 chr1 21825400 21825600 0 1
+R100031 chr1 21825600 21825800 0 1
+R100032 chr1 21825800 21826000 0 1
+R100033 chr1 21826000 21826200 0 1
+R100034 chr1 21826200 21826400 0 1
+R100035 chr1 21826400 21826600 0 1
+R100036 chr1 21826600 21826800 0 1
+R100037 chr1 21826800 21827000 0 1
+R100038 chr1 21827000 21827200 0 1
+R100039 chr1 21827200 21827400 0 1
+R100040 chr1 21827400 21827600 0 1
+R100041 chr1 21827600 21827800 0 1
+R100042 chr1 21827800 21828000 0 1
+R100043 chr1 21828000 21828200 0 1
+R100044 chr1 21828200 21828400 0 1
+R100045 chr1 21828400 21828600 0 1
+R100046 chr1 21829000 21829200 0 1
+R100047 chr1 21829400 21829600 0 1
+R100048 chr1 21829600 21829800 0 1
+R100049 chr1 21829800 21830000 0 1
+R100050 chr1 21830000 21830200 0 1
diff -r bc1e9eb54f3c -r fc6f39767c83 test-data/e001-h3k4me3.bigwig
Binary file test-data/e001-h3k4me3.bigwig has changed
diff -r bc1e9eb54f3c -r fc6f39767c83 test-data/output_trackhub.html
--- /dev/null Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/output_trackhub.html Tue Nov 21 13:23:28 2017 -0500
@@ -0,0 +1,10 @@
+
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diff -r bc1e9eb54f3c -r fc6f39767c83 test-data/test.bed
--- a/test-data/test.bed Tue Nov 21 09:04:59 2017 -0500
+++ /dev/null Thu Jan 01 00:00:00 1970 +0000
@@ -1,50 +0,0 @@
-chr1 21819600 21819800 R100001
-chr1 21819800 21820000 R100002
-chr1 21820000 21820200 R100003
-chr1 21820200 21820400 R100004
-chr1 21820400 21820600 R100005
-chr1 21820600 21820800 R100006
-chr1 21820800 21821000 R100007
-chr1 21821000 21821200 R100008
-chr1 21821200 21821400 R100009
-chr1 21821400 21821600 R100010
-chr1 21821600 21821800 R100011
-chr1 21821800 21822000 R100012
-chr1 21822000 21822200 R100013
-chr1 21822200 21822400 R100014
-chr1 21822400 21822600 R100015
-chr1 21822600 21822800 R100016
-chr1 21822800 21823000 R100017
-chr1 21823000 21823200 R100018
-chr1 21823200 21823400 R100019
-chr1 21823400 21823600 R100020
-chr1 21823600 21823800 R100021
-chr1 21823800 21824000 R100022
-chr1 21824000 21824200 R100023
-chr1 21824200 21824400 R100024
-chr1 21824400 21824600 R100025
-chr1 21824600 21824800 R100026
-chr1 21824800 21825000 R100027
-chr1 21825000 21825200 R100028
-chr1 21825200 21825400 R100029
-chr1 21825400 21825600 R100030
-chr1 21825600 21825800 R100031
-chr1 21825800 21826000 R100032
-chr1 21826000 21826200 R100033
-chr1 21826200 21826400 R100034
-chr1 21826400 21826600 R100035
-chr1 21826600 21826800 R100036
-chr1 21826800 21827000 R100037
-chr1 21827000 21827200 R100038
-chr1 21827200 21827400 R100039
-chr1 21827400 21827600 R100040
-chr1 21827600 21827800 R100041
-chr1 21827800 21828000 R100042
-chr1 21828000 21828200 R100043
-chr1 21828200 21828400 R100044
-chr1 21828400 21828600 R100045
-chr1 21829000 21829200 R100046
-chr1 21829400 21829600 R100047
-chr1 21829600 21829800 R100048
-chr1 21829800 21830000 R100049
-chr1 21830000 21830200 R100050