Re: [ccp4bb] Convert cbf to png/tiff?
-BEGIN PGP SIGNED MESSAGE- Hash: SHA1 Hi Pat, for several versions adxv has been able to save as tif, although (maybe) not from the GUI. If you type 'adxv -?' you get the instruction manual including the '-sa' option which converts to some tiff file. Buy the whey, tiff is not an image format, it is an 'image file format' and does not per se guarantuee a losless image, e.g. TIFF allows to contain a lossy jpeg image. Cheers, Tim On 01/10/2013 09:45 PM, Patrick Loll wrote: adxv reads cbf images, and can save them as postscript (actually, it's supposed to be able to save the image as tiff as well, but at least on my version of the program that feature doesn't work). Pat On 10 Jan 2013, at 3:36 PM, Frank von Delft wrote: Hello all - anybody know an easy way to convert CBF images (Pilatus) into something lossless like tiff or png? Ideally *easy* as in r e a l l y e a s y and not requiring extensive installation of dependencies and stuff. Because then I might as well write my own stuff using cbflib and PIL in python. Thanks! phx --- Patrick J. Loll, Ph. D. Professor of Biochemistry Molecular Biology Director, Biochemistry Graduate Program Drexel University College of Medicine Room 10-102 New College Building 245 N. 15th St., Mailstop 497 Philadelphia, PA 19102-1192 USA (215) 762-7706 pat.l...@drexelmed.edu - -- - -- Dr Tim Gruene Institut fuer anorganische Chemie Tammannstr. 4 D-37077 Goettingen GPG Key ID = A46BEE1A -BEGIN PGP SIGNATURE- Version: GnuPG v1.4.12 (GNU/Linux) Comment: Using GnuPG with Mozilla - http://enigmail.mozdev.org/ iD8DBQFQ8D3qUxlJ7aRr7hoRAk72AJ9oATvw/cMviZuUNS0XhkKoZMrLKwCgwqKA 6v1VeBG4GGtUJTwL7w365Ds= =u7hG -END PGP SIGNATURE-
Re: [ccp4bb] Fwd: Re: [ccp4bb] Convert cbf to png/tiff?
-BEGIN PGP SIGNED MESSAGE- Hash: SHA1 Hi Nat! How recent is recent? From today's 'phenix-online.org': New Phenix version 1.8.1 now available, but tg@slartibartfast:~/uni/datasets/nk/xds_run3$ labelit.png_1.8.1-1168 DX-CORRECTIONS.cbf Traceback (most recent call last): File /xtal/Suites/Phenix/phenix-1.8.1-1168/build/intel-linux-2.6-x86_64/../../labelit/command_line/png.py, line 27, in module OV = overlay_plain(infile,graphics_bin) File /xtal/Suites/Phenix/phenix-1.8.1-1168/build/intel-linux-2.6-x86_64/../../labelit/command_line/png.py, line 6, in __init__ OverlayDriverClass.__init__(self,infile,graphics_bin) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/command_line/overlay_distl.py, line 19, in __init__ self.I = GenericImageWorker(infile,binning=graphics_bin) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/graphics/support.py, line 12, in __init__ images = ImageFiles(imagenames,labelit_commands) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/command_line/imagefiles.py, line 184, in __init__ self.filenames = FileNames(arg_module,phil_params) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/command_line/imagefiles.py, line 70, in __init__ self.interface3_parse_command() File /xtal/Suites/Phenix/phenix-1.8.1-1168/cctbx_project/spotfinder/diffraction/imagefiles.py, line 138, in interface3_parse_command self.interface3_FN_factory(os.path.abspath(file),error_message=File name not accepted) File /xtal/Suites/Phenix/phenix-1.8.1-1168/cctbx_project/spotfinder/diffraction/imagefiles.py, line 127, in interface3_FN_factory raise Exception(Input error: +error_message) Exception: Input error: File name not accepted Compared to: tg@slartibartfast:~/uni/datasets/nk/xds_run3$ adxv -sa DX-CORRECTIONS.cbf DX-CORRECTIONS.tiff Adxv Version 1.9.8 Copyright (C) 1994-2011 by Andrew Arvai, Area Detector Systems Corporation Recognized CBF format data. Warning: Could not find diffrn_frame_data or diffrn_data_frame tg@slartibartfast:~/uni/datasets/nk/xds_run3$ identify DX-CORRECTIONS.tiff DX-CORRECTIONS.tiff TIFF 768x768 768x768+0+0 8-bit PseudoClass 256c 592KB 0.000u 0:00.000 Cheers, Tim On 01/10/2013 09:59 PM, Frank von Delft wrote: Brilliant - thanks Nat!! Easy to work around that feature. And thanks Nick!! Original Message Subject: Re: [ccp4bb] Convert cbf to png/tiff? Date: Thu, 10 Jan 2013 12:47:21 -0800 From: Nat Echols nathaniel.ech...@gmail.com To: Frank von Delft frank.vonde...@sgc.ox.ac.uk Using any recent Phenix distribution: labelit.png file_name For reasons unknown to me, the output is named plain.png - I will bug Nick about this. On Thu, Jan 10, 2013 at 12:36 PM, Frank von Delft frank.vonde...@sgc.ox.ac.uk wrote: Hello all - anybody know an easy way to convert CBF images (Pilatus) into something lossless like tiff or png? Ideally *easy* as in r e a l l y e a s y and not requiring extensive installation of dependencies and stuff. Because then I might as well write my own stuff using cbflib and PIL in python. Thanks! phx - -- - -- Dr Tim Gruene Institut fuer anorganische Chemie Tammannstr. 4 D-37077 Goettingen GPG Key ID = A46BEE1A -BEGIN PGP SIGNATURE- Version: GnuPG v1.4.12 (GNU/Linux) Comment: Using GnuPG with Mozilla - http://enigmail.mozdev.org/ iD8DBQFQ8D8kUxlJ7aRr7hoRAkcsAJ9Z4JmZ3zAvFYDRMaGbzunMYTjLNACfQWBP s3YM17LqF9zvCsAK8ezG8xQ= =hXlq -END PGP SIGNATURE-
Re: [ccp4bb] Fwd: Re: [ccp4bb] Convert cbf to png/tiff?
I got that error blurb too when I run without an image on the commandline. Not very elegant. Try: labelit.png --help On 11/01/2013 16:34, Tim Gruene wrote: -BEGIN PGP SIGNED MESSAGE- Hash: SHA1 Hi Nat! How recent is recent? From today's 'phenix-online.org': New Phenix version 1.8.1 now available, but tg@slartibartfast:~/uni/datasets/nk/xds_run3$ labelit.png_1.8.1-1168 DX-CORRECTIONS.cbf Traceback (most recent call last): File /xtal/Suites/Phenix/phenix-1.8.1-1168/build/intel-linux-2.6-x86_64/../../labelit/command_line/png.py, line 27, in module OV = overlay_plain(infile,graphics_bin) File /xtal/Suites/Phenix/phenix-1.8.1-1168/build/intel-linux-2.6-x86_64/../../labelit/command_line/png.py, line 6, in __init__ OverlayDriverClass.__init__(self,infile,graphics_bin) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/command_line/overlay_distl.py, line 19, in __init__ self.I = GenericImageWorker(infile,binning=graphics_bin) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/graphics/support.py, line 12, in __init__ images = ImageFiles(imagenames,labelit_commands) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/command_line/imagefiles.py, line 184, in __init__ self.filenames = FileNames(arg_module,phil_params) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/command_line/imagefiles.py, line 70, in __init__ self.interface3_parse_command() File /xtal/Suites/Phenix/phenix-1.8.1-1168/cctbx_project/spotfinder/diffraction/imagefiles.py, line 138, in interface3_parse_command self.interface3_FN_factory(os.path.abspath(file),error_message=File name not accepted) File /xtal/Suites/Phenix/phenix-1.8.1-1168/cctbx_project/spotfinder/diffraction/imagefiles.py, line 127, in interface3_FN_factory raise Exception(Input error: +error_message) Exception: Input error: File name not accepted Compared to: tg@slartibartfast:~/uni/datasets/nk/xds_run3$ adxv -sa DX-CORRECTIONS.cbf DX-CORRECTIONS.tiff Adxv Version 1.9.8 Copyright (C) 1994-2011 by Andrew Arvai, Area Detector Systems Corporation Recognized CBF format data. Warning: Could not find diffrn_frame_data or diffrn_data_frame tg@slartibartfast:~/uni/datasets/nk/xds_run3$ identify DX-CORRECTIONS.tiff DX-CORRECTIONS.tiff TIFF 768x768 768x768+0+0 8-bit PseudoClass 256c 592KB 0.000u 0:00.000 Cheers, Tim On 01/10/2013 09:59 PM, Frank von Delft wrote: Brilliant - thanks Nat!! Easy to work around that feature. And thanks Nick!! Original Message Subject: Re: [ccp4bb] Convert cbf to png/tiff? Date: Thu, 10 Jan 2013 12:47:21 -0800 From: Nat Echols nathaniel.ech...@gmail.com To: Frank von Delft frank.vonde...@sgc.ox.ac.uk Using any recent Phenix distribution: labelit.png file_name For reasons unknown to me, the output is named plain.png - I will bug Nick about this. On Thu, Jan 10, 2013 at 12:36 PM, Frank von Delft frank.vonde...@sgc.ox.ac.uk wrote: Hello all - anybody know an easy way to convert CBF images (Pilatus) into something lossless like tiff or png? Ideally *easy* as in r e a l l y e a s y and not requiring extensive installation of dependencies and stuff. Because then I might as well write my own stuff using cbflib and PIL in python. Thanks! phx - -- - -- Dr Tim Gruene Institut fuer anorganische Chemie Tammannstr. 4 D-37077 Goettingen GPG Key ID = A46BEE1A -BEGIN PGP SIGNATURE- Version: GnuPG v1.4.12 (GNU/Linux) Comment: Using GnuPG with Mozilla - http://enigmail.mozdev.org/ iD8DBQFQ8D8kUxlJ7aRr7hoRAkcsAJ9Z4JmZ3zAvFYDRMaGbzunMYTjLNACfQWBP s3YM17LqF9zvCsAK8ezG8xQ= =hXlq -END PGP SIGNATURE-
Re: [ccp4bb] Fwd: Re: [ccp4bb] Convert cbf to png/tiff?
I think the help message refers to another program. Anyway, it's an extremely simple script - having examined the code, the command-line invocation is: labelit.png input_file [output_file] and that's it - no other options available. But Nick or I will fix it so it prints something more useful if run without arguments. -Nat On Fri, Jan 11, 2013 at 9:33 AM, Frank von Delft frank.vonde...@sgc.ox.ac.uk wrote: I got that error blurb too when I run without an image on the commandline. Not very elegant. Try: labelit.png --help On 11/01/2013 16:34, Tim Gruene wrote: -BEGIN PGP SIGNED MESSAGE- Hash: SHA1 Hi Nat! How recent is recent? From today's 'phenix-online.org': New Phenix version 1.8.1 now available, but tg@slartibartfast:~/uni/datasets/nk/xds_run3$ labelit.png_1.8.1-1168 DX-CORRECTIONS.cbf Traceback (most recent call last): File /xtal/Suites/Phenix/phenix-1.8.1-1168/build/intel-linux-2.6-x86_64/../../labelit/command_line/png.py, line 27, in module OV = overlay_plain(infile,graphics_bin) File /xtal/Suites/Phenix/phenix-1.8.1-1168/build/intel-linux-2.6-x86_64/../../labelit/command_line/png.py, line 6, in __init__ OverlayDriverClass.__init__(self,infile,graphics_bin) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/command_line/overlay_distl.py, line 19, in __init__ self.I = GenericImageWorker(infile,binning=graphics_bin) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/graphics/support.py, line 12, in __init__ images = ImageFiles(imagenames,labelit_commands) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/command_line/imagefiles.py, line 184, in __init__ self.filenames = FileNames(arg_module,phil_params) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/command_line/imagefiles.py, line 70, in __init__ self.interface3_parse_command() File /xtal/Suites/Phenix/phenix-1.8.1-1168/cctbx_project/spotfinder/diffraction/imagefiles.py, line 138, in interface3_parse_command self.interface3_FN_factory(os.path.abspath(file),error_message=File name not accepted) File /xtal/Suites/Phenix/phenix-1.8.1-1168/cctbx_project/spotfinder/diffraction/imagefiles.py, line 127, in interface3_FN_factory raise Exception(Input error: +error_message) Exception: Input error: File name not accepted Compared to: tg@slartibartfast:~/uni/datasets/nk/xds_run3$ adxv -sa DX-CORRECTIONS.cbf DX-CORRECTIONS.tiff Adxv Version 1.9.8 Copyright (C) 1994-2011 by Andrew Arvai, Area Detector Systems Corporation Recognized CBF format data. Warning: Could not find diffrn_frame_data or diffrn_data_frame tg@slartibartfast:~/uni/datasets/nk/xds_run3$ identify DX-CORRECTIONS.tiff DX-CORRECTIONS.tiff TIFF 768x768 768x768+0+0 8-bit PseudoClass 256c 592KB 0.000u 0:00.000 Cheers, Tim On 01/10/2013 09:59 PM, Frank von Delft wrote: Brilliant - thanks Nat!! Easy to work around that feature. And thanks Nick!! Original Message Subject: Re: [ccp4bb] Convert cbf to png/tiff? Date: Thu, 10 Jan 2013 12:47:21 -0800 From: Nat Echols nathaniel.ech...@gmail.com To: Frank von Delft frank.vonde...@sgc.ox.ac.uk Using any recent Phenix distribution: labelit.png file_name For reasons unknown to me, the output is named plain.png - I will bug Nick about this. On Thu, Jan 10, 2013 at 12:36 PM, Frank von Delft frank.vonde...@sgc.ox.ac.uk wrote: Hello all - anybody know an easy way to convert CBF images (Pilatus) into something lossless like tiff or png? Ideally *easy* as in r e a l l y e a s y and not requiring extensive installation of dependencies and stuff. Because then I might as well write my own stuff using cbflib and PIL in python. Thanks! phx - -- - -- Dr Tim Gruene Institut fuer anorganische Chemie Tammannstr. 4 D-37077 Goettingen GPG Key ID = A46BEE1A -BEGIN PGP SIGNATURE- Version: GnuPG v1.4.12 (GNU/Linux) Comment: Using GnuPG with Mozilla - http://enigmail.mozdev.org/ iD8DBQFQ8D8kUxlJ7aRr7hoRAkcsAJ9Z4JmZ3zAvFYDRMaGbzunMYTjLNACfQWBP s3YM17LqF9zvCsAK8ezG8xQ= =hXlq -END PGP SIGNATURE-
Re: [ccp4bb] Fwd: Re: [ccp4bb] Convert cbf to png/tiff?
-BEGIN PGP SIGNED MESSAGE- Hash: SHA1 The formatting of icedove probably created confusion, but these error message come from running labelit.png WITH the file DX-CORRECTIONS.cbf as one and only command line option and no output is created. adxv has not problem dealing with XDS cbf-files. Tim On 01/11/2013 06:43 PM, Nat Echols wrote: I think the help message refers to another program. Anyway, it's an extremely simple script - having examined the code, the command-line invocation is: labelit.png input_file [output_file] and that's it - no other options available. But Nick or I will fix it so it prints something more useful if run without arguments. -Nat On Fri, Jan 11, 2013 at 9:33 AM, Frank von Delft frank.vonde...@sgc.ox.ac.uk wrote: I got that error blurb too when I run without an image on the commandline. Not very elegant. Try: labelit.png --help On 11/01/2013 16:34, Tim Gruene wrote: Hi Nat! How recent is recent? From today's 'phenix-online.org': New Phenix version 1.8.1 now available, but tg@slartibartfast:~/uni/datasets/nk/xds_run3$ labelit.png_1.8.1-1168 DX-CORRECTIONS.cbf Traceback (most recent call last): File /xtal/Suites/Phenix/phenix-1.8.1-1168/build/intel-linux-2.6-x86_64/../../labelit/command_line/png.py, line 27, in module OV = overlay_plain(infile,graphics_bin) File /xtal/Suites/Phenix/phenix-1.8.1-1168/build/intel-linux-2.6-x86_64/../../labelit/command_line/png.py, line 6, in __init__ OverlayDriverClass.__init__(self,infile,graphics_bin) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/command_line/overlay_distl.py, line 19, in __init__ self.I = GenericImageWorker(infile,binning=graphics_bin) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/graphics/support.py, line 12, in __init__ images = ImageFiles(imagenames,labelit_commands) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/command_line/imagefiles.py, line 184, in __init__ self.filenames = FileNames(arg_module,phil_params) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/command_line/imagefiles.py, line 70, in __init__ self.interface3_parse_command() File /xtal/Suites/Phenix/phenix-1.8.1-1168/cctbx_project/spotfinder/diffraction/imagefiles.py, line 138, in interface3_parse_command self.interface3_FN_factory(os.path.abspath(file),error_message=File name not accepted) File /xtal/Suites/Phenix/phenix-1.8.1-1168/cctbx_project/spotfinder/diffraction/imagefiles.py, line 127, in interface3_FN_factory raise Exception(Input error: +error_message) Exception: Input error: File name not accepted Compared to: tg@slartibartfast:~/uni/datasets/nk/xds_run3$ adxv -sa DX-CORRECTIONS.cbf DX-CORRECTIONS.tiff Adxv Version 1.9.8 Copyright (C) 1994-2011 by Andrew Arvai, Area Detector Systems Corporation Recognized CBF format data. Warning: Could not find diffrn_frame_data or diffrn_data_frame tg@slartibartfast:~/uni/datasets/nk/xds_run3$ identify DX-CORRECTIONS.tiff DX-CORRECTIONS.tiff TIFF 768x768 768x768+0+0 8-bit PseudoClass 256c 592KB 0.000u 0:00.000 Cheers, Tim On 01/10/2013 09:59 PM, Frank von Delft wrote: Brilliant - thanks Nat!! Easy to work around that feature. And thanks Nick!! Original Message Subject: Re: [ccp4bb] Convert cbf to png/tiff? Date: Thu, 10 Jan 2013 12:47:21 -0800 From: Nat Echols nathaniel.ech...@gmail.com To: Frank von Delft frank.vonde...@sgc.ox.ac.uk Using any recent Phenix distribution: labelit.png file_name For reasons unknown to me, the output is named plain.png - I will bug Nick about this. On Thu, Jan 10, 2013 at 12:36 PM, Frank von Delft frank.vonde...@sgc.ox.ac.uk wrote: Hello all - anybody know an easy way to convert CBF images (Pilatus) into something lossless like tiff or png? Ideally *easy* as in r e a l l y e a s y and not requiring extensive installation of dependencies and stuff. Because then I might as well write my own stuff using cbflib and PIL in python. Thanks! phx -- - -- Dr Tim Gruene Institut fuer anorganische Chemie Tammannstr. 4 D-37077 Goettingen GPG Key ID = A46BEE1A - -- - -- Dr Tim Gruene Institut fuer anorganische Chemie Tammannstr. 4 D-37077 Goettingen GPG Key ID = A46BEE1A -BEGIN PGP SIGNATURE- Version: GnuPG v1.4.12 (GNU/Linux) Comment: Using GnuPG with Mozilla - http://enigmail.mozdev.org/ iD8DBQFQ8FE+UxlJ7aRr7hoRApmAAKCNjwmHe8q5QpoFA9V3cSVtMwLqbgCgxwIa xwICsaEtz3Phoe6uM2kJ308= =fdKq -END PGP SIGNATURE-
Re: [ccp4bb] Fwd: Re: [ccp4bb] Convert cbf to png/tiff?
Normally the input files for Labelit must have sequential numbering like lysozyme_001.cbf. The file name DX-CORRECTIONS.cbf causes the reported error as it does not conform to this format. Nick On Fri, Jan 11, 2013 at 9:51 AM, Tim Gruene t...@shelx.uni-ac.gwdg.de wrote: -BEGIN PGP SIGNED MESSAGE- Hash: SHA1 The formatting of icedove probably created confusion, but these error message come from running labelit.png WITH the file DX-CORRECTIONS.cbf as one and only command line option and no output is created. adxv has not problem dealing with XDS cbf-files. Tim On 01/11/2013 06:43 PM, Nat Echols wrote: I think the help message refers to another program. Anyway, it's an extremely simple script - having examined the code, the command-line invocation is: labelit.png input_file [output_file] and that's it - no other options available. But Nick or I will fix it so it prints something more useful if run without arguments. -Nat On Fri, Jan 11, 2013 at 9:33 AM, Frank von Delft frank.vonde...@sgc.ox.ac.uk wrote: I got that error blurb too when I run without an image on the commandline. Not very elegant. Try: labelit.png --help On 11/01/2013 16:34, Tim Gruene wrote: Hi Nat! How recent is recent? From today's 'phenix-online.org': New Phenix version 1.8.1 now available, but tg@slartibartfast:~/uni/datasets/nk/xds_run3$ labelit.png_1.8.1-1168 DX-CORRECTIONS.cbf Traceback (most recent call last): File /xtal/Suites/Phenix/phenix-1.8.1-1168/build/intel-linux-2.6-x86_64/../../labelit/command_line/png.py, line 27, in module OV = overlay_plain(infile,graphics_bin) File /xtal/Suites/Phenix/phenix-1.8.1-1168/build/intel-linux-2.6-x86_64/../../labelit/command_line/png.py, line 6, in __init__ OverlayDriverClass.__init__(self,infile,graphics_bin) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/command_line/overlay_distl.py, line 19, in __init__ self.I = GenericImageWorker(infile,binning=graphics_bin) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/graphics/support.py, line 12, in __init__ images = ImageFiles(imagenames,labelit_commands) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/command_line/imagefiles.py, line 184, in __init__ self.filenames = FileNames(arg_module,phil_params) File /xtal/Suites/Phenix/phenix-1.8.1-1168/labelit/command_line/imagefiles.py, line 70, in __init__ self.interface3_parse_command() File /xtal/Suites/Phenix/phenix-1.8.1-1168/cctbx_project/spotfinder/diffraction/imagefiles.py, line 138, in interface3_parse_command self.interface3_FN_factory(os.path.abspath(file),error_message=File name not accepted) File /xtal/Suites/Phenix/phenix-1.8.1-1168/cctbx_project/spotfinder/diffraction/imagefiles.py, line 127, in interface3_FN_factory raise Exception(Input error: +error_message) Exception: Input error: File name not accepted Compared to: tg@slartibartfast:~/uni/datasets/nk/xds_run3$ adxv -sa DX-CORRECTIONS.cbf DX-CORRECTIONS.tiff Adxv Version 1.9.8 Copyright (C) 1994-2011 by Andrew Arvai, Area Detector Systems Corporation Recognized CBF format data. Warning: Could not find diffrn_frame_data or diffrn_data_frame tg@slartibartfast:~/uni/datasets/nk/xds_run3$ identify DX-CORRECTIONS.tiff DX-CORRECTIONS.tiff TIFF 768x768 768x768+0+0 8-bit PseudoClass 256c 592KB 0.000u 0:00.000 Cheers, Tim On 01/10/2013 09:59 PM, Frank von Delft wrote: Brilliant - thanks Nat!! Easy to work around that feature. And thanks Nick!! Original Message Subject: Re: [ccp4bb] Convert cbf to png/tiff? Date: Thu, 10 Jan 2013 12:47:21 -0800 From: Nat Echols nathaniel.ech...@gmail.com To: Frank von Delft frank.vonde...@sgc.ox.ac.uk Using any recent Phenix distribution: labelit.png file_name For reasons unknown to me, the output is named plain.png - I will bug Nick about this. On Thu, Jan 10, 2013 at 12:36 PM, Frank von Delft frank.vonde...@sgc.ox.ac.uk wrote: Hello all - anybody know an easy way to convert CBF images (Pilatus) into something lossless like tiff or png? Ideally *easy* as in r e a l l y e a s y and not requiring extensive installation of dependencies and stuff. Because then I might as well write my own stuff using cbflib and PIL in python. Thanks! phx -- - -- Dr Tim Gruene Institut fuer anorganische Chemie Tammannstr. 4 D-37077 Goettingen GPG Key ID = A46BEE1A - -- - -- Dr Tim Gruene Institut fuer anorganische Chemie Tammannstr. 4 D-37077 Goettingen GPG Key ID = A46BEE1A -BEGIN PGP SIGNATURE- Version: GnuPG v1.4.12 (GNU/Linux) Comment: Using GnuPG with Mozilla - http://enigmail.mozdev.org/ iD8DBQFQ8FE+UxlJ7aRr7hoRApmAAKCNjwmHe8q5QpoFA9V3cSVtMwLqbgCgxwIa xwICsaEtz3Phoe6uM2kJ308= =fdKq -END PGP SIGNATURE- -- Nicholas K. Sauter, Ph. D. Computer Staff Scientist, Physical Biosciences Division Lawrence Berkeley National Laboratory 1 Cyclotron Rd., Bldg. 64R0121 Berkeley, CA 94720
[ccp4bb] Convert cbf to png/tiff?
Hello all - anybody know an easy way to convert CBF images (Pilatus) into something lossless like tiff or png? Ideally *easy* as in r e a l l y e a s y and not requiring extensive installation of dependencies and stuff. Because then I might as well write my own stuff using cbflib and PIL in python. Thanks! phx
Re: [ccp4bb] Convert cbf to png/tiff?
I think ADXV will do the trick. Regards, Dmitry On 2013-01-10, at 3:36 PM, Frank von Delft wrote: Hello all - anybody know an easy way to convert CBF images (Pilatus) into something lossless like tiff or png? Ideally *easy* as in r e a l l y e a s y and not requiring extensive installation of dependencies and stuff. Because then I might as well write my own stuff using cbflib and PIL in python. Thanks! phx
Re: [ccp4bb] Convert cbf to png/tiff?
adxv reads cbf images, and can save them as postscript (actually, it's supposed to be able to save the image as tiff as well, but at least on my version of the program that feature doesn't work). Pat On 10 Jan 2013, at 3:36 PM, Frank von Delft wrote: Hello all - anybody know an easy way to convert CBF images (Pilatus) into something lossless like tiff or png? Ideally *easy* as in r e a l l y e a s y and not requiring extensive installation of dependencies and stuff. Because then I might as well write my own stuff using cbflib and PIL in python. Thanks! phx --- Patrick J. Loll, Ph. D. Professor of Biochemistry Molecular Biology Director, Biochemistry Graduate Program Drexel University College of Medicine Room 10-102 New College Building 245 N. 15th St., Mailstop 497 Philadelphia, PA 19102-1192 USA (215) 762-7706 pat.l...@drexelmed.edu
[ccp4bb] Fwd: Re: [ccp4bb] Convert cbf to png/tiff?
Brilliant - thanks Nat!! Easy to work around that feature. And thanks Nick!! Original Message Subject:Re: [ccp4bb] Convert cbf to png/tiff? Date: Thu, 10 Jan 2013 12:47:21 -0800 From: Nat Echols nathaniel.ech...@gmail.com To: Frank von Delft frank.vonde...@sgc.ox.ac.uk Using any recent Phenix distribution: labelit.png file_name For reasons unknown to me, the output is named plain.png - I will bug Nick about this. On Thu, Jan 10, 2013 at 12:36 PM, Frank von Delft frank.vonde...@sgc.ox.ac.uk wrote: Hello all - anybody know an easy way to convert CBF images (Pilatus) into something lossless like tiff or png? Ideally *easy* as in r e a l l y e a s y and not requiring extensive installation of dependencies and stuff. Because then I might as well write my own stuff using cbflib and PIL in python. Thanks! phx
