def export2gif(molecule, pathMolGif, project = None):
"""Return True on error but will still put a default image in."""
check_type(molecule, 'Molecule')
check_string(pathMolGif)
if project:
check_type(project, 'Project')
# nTdebug("Now in cing.Plugincode.molgrap#export2gif")
m = Molgrap(project = project)
m.run(molecule, pathMolGif)
failed = False
if not os.path.exists(pathMolGif):
failed = True
src = os.path.join( cingPythonCingDir, 'PluginCode', DATA_STR, 'UnknownImage.gif' )
# if os.path.exists(pathMolGif): # disable when done testing.
# os.unlink(pathMolGif)
nTmessage("copying default image from %s to %s" % (src, pathMolGif))
# os.link(src, pathMolGif) # us a real copy JFD: fails between 2 filesystems
disk.copy(src, pathMolGif) # us a real copy
# os.symlink(src, pathMolGif) # funny, the extension on mac fails to show up for this file only; other extensions are shown ok...
# end if
pathMolGifPinup = pathMolGif[:-4] + '_pin.gif'
if convertImageMagick(pathMolGif, pathMolGifPinup, options='-geometry 114x80'):
nTerror("convertImageMagick failed for: " + pathMolGifPinup)
# end if
if failed:
return True
return None
def createPinUp(pdb_id, extraArgListStr):
print 'pdb_id: ' + pdb_id
print 'extraArgListStr: ' + extraArgListStr
ch23 = pdb_id[1:3]
# /Library/WebServer/Documents/NRG-CING/data/a2/1a24/1a24.cing/1a24/HTML
htmlDir = '/Library/WebServer/Documents/%(results_base)s/data/%(ch23)s/%(pdb_id)s/%(pdb_id)s.cing/%(pdb_id)s/HTML' % {
'pdb_id':pdb_id,'ch23':ch23, 'results_base': extraArgListStr}
inputPath = os.path.join(htmlDir, 'mol.gif')
outputPath = os.path.join(htmlDir, 'mol_pin.gif')
if convertImageMagick(inputPath, outputPath, options='-geometry 114x80'): # Dimension to match the one in molgrap.py
print 'ERROR: failed for: ' + inputPath
def createPinUp(pdb_id, extraArgListStr):
print 'pdb_id: ' + pdb_id
print 'extraArgListStr: ' + extraArgListStr
ch23 = pdb_id[1:3]
# /Library/WebServer/Documents/NRG-CING/data/a2/1a24/1a24.cing/1a24/HTML
htmlDir = '/Library/WebServer/Documents/%(results_base)s/data/%(ch23)s/%(pdb_id)s/%(pdb_id)s.cing/%(pdb_id)s/HTML' % {
'pdb_id': pdb_id,
'ch23': ch23,
'results_base': extraArgListStr
}
inputPath = os.path.join(htmlDir, 'mol.gif')
outputPath = os.path.join(htmlDir, 'mol_pin.gif')
if convertImageMagick(inputPath, outputPath, options='-geometry 114x80'
): # Dimension to match the one in molgrap.py
print 'ERROR: failed for: ' + inputPath
def testConvert2Web(self):
fn = "pc_nmr_11_rstraints.ps"
# fn = "1vnd_11_rstraints.ps"
self.assertTrue( os.path.exists( cingDirTestsData) and os.path.isdir(cingDirTestsData ) )
inputPath = os.path.join(cingDirTestsData,fn)
fileList = convert2Web( inputPath, outputDir='.', doMontage=True )
nTdebug( "Got back from convert2Web output file names: " + repr(fileList))
self.assertNotEqual(fileList,True)
if fileList != True:
for file in fileList:
self.assertNotEqual( file, None)
fn1 = "pc_nmr_11_rstraints.pdf"
self.assertFalse( joinPdfPagesByGhostScript( [fn1,fn1], "pc_nmr_11_rstraints_echo.pdf"))
outputPath = 'pc_nmr_11_rstraints_pin.gif'
self.assertFalse(convertImageMagick(inputPath, outputPath, options='-geometry 57x40'))
self.assertTrue(os.path.exists(outputPath))