--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/tools/data_source/import.py	Fri Mar 09 19:37:19 2012 -0500
@@ -0,0 +1,61 @@
+#!/usr/bin/env python
+
+"""
+Script that imports locally stored data as a new dataset for the user
+Usage: import id outputfile
+"""
+import sys, os
+
+assert sys.version_info[:2] >= ( 2, 4 )
+
+BUFFER = 1048576
+
+dataid   = sys.argv[1]
+out_name = sys.argv[2]
+
+
+id2name = {
+    'eryth'         : 'ErythPreCRMmm3_cusTrk.txt',
+    'cishg16'       : 'ReglRegHBBhg16CusTrk.txt',
+    'cishg17'       : 'ReglRegHBBhg17CusTrk.txt',
+    'exons'         : 'ExonsKnownGenes_mm3.txt',
+    'krhg16'        : 'known_regulatory_hg16.bed',
+    'krhg17'        : 'known_regulatory_hg17.bed',
+    'tARhg16mmc'    : 'hg16.mouse.t_AR.cold.bed',
+    'tARhg16mmm'    : 'hg16.mouse.t_AR.medium.bed',
+    'tARhg16mmh'    : 'hg16.mouse.t_AR.hot.bed',
+    'tARhg16rnc'    : 'hg16.rat.t_AR.cold.bed',
+    'tARhg16rnm'    : 'hg16.rat.t_AR.medium.bed',
+    'tARhg16rnh'    : 'hg16.rat.t_AR.hot.bed',
+    'phastConsHg16' : 'phastConsMost_hg16.bed',
+    'omimhg16'      : 'omimDisorders_hg16.tab',
+    'omimhg17'      : 'omimDisorders_hg17.tab',
+
+}
+
+fname = id2name.get(dataid, '')
+if not fname:
+    print 'Importing invalid data %s' % dataid
+    sys.exit()
+else:
+    print 'Imported %s' % fname
+
+# this path is hardcoded
+inp_name = os.path.join('database', 'import', fname)
+
+try:
+    inp = open(inp_name, 'rt')
+except:
+    print 'Could not find file %s' % inp_name
+    sys.exit()
+
+out = open(out_name, 'wt')
+
+while 1:
+    data = inp.read(BUFFER)
+    if not data:
+        break
+    out.write(data)
+
+inp.close()
+out.close()