Re: [PyMOL] Whitespacing?
fukami...@chugai-pharm.co.jp wrote: > Be careful if you use tab mixed with spaces and prefer 4-space indentation. > Python interprets tabs as 8-space indent. See python document below: > http://docs.python.org/reference/lexical_analysis.html#indentation > Python code will work as long as the indentation is consistent through the code you run, as far as I know there are no rules stating that there has to be 8-space indents. I've used both 2 and 4 spaces. Yea for space rather than tabs though. -Siv Hollup > HTH > > -Original Message- > From: Schubert, Carsten [PRDUS] [mailto:cschu...@its.jnj.com] > Sent: Wednesday, January 27, 2010 1:31 AM > To: Jason Vertrees; David Hall > Cc: pymol-users > Subject: Re: [PyMOL] Whitespacing? > > Not much of a help, but WingIDE Professional Edition has a very good > indentation manager, which takes care of the mixed/space tab issues. If you > are working in python frequently it is a worthwhile investment. > > Cheers, > > Carsten > > >> -Original Message- >> From: Jason Vertrees [mailto:jason.vertr...@schrodinger.com] >> Sent: Tuesday, January 26, 2010 10:10 AM >> To: David Hall >> Cc: pymol-users >> Subject: Re: [PyMOL] Whitespacing? >> >> David, >> >> Oh, the joys of open-source. Here's my solution for you: >> (1) load your file in your favorite editor >> (2) determine user-desired tab stop setting >> (3) convert all tabs to spaces in your editor (or search replace tabs >> with X-spaces) >> (4) save your file >> >> One warning though, I have seen some interpreters crash when they >> encounter spaces over tabs. >> >> -- Jason >> >> On Tue, Jan 26, 2010 at 9:12 AM, David Hall >> wrote: >>> During my editing of dynoplot.py, I noticed that there were some >>> whitespace issues. Normally I consider whitespace a bikeshedding >>> topic, but in python, it is significant, so it matters. When tabs >> and >>> spaces are mixed, our own personal settings for how tabs are >> displayed >>> in an editor makes a huge difference in whether the script is >>> understandable. >>> >>> I checked out the git repo of pymol scripts ( >>> http://github.com/jlec/Pymol-script-repo/ ) and did some analysis >>> >>> First, these files switch between some lines where all indenting is >>> tabs to lines where all indenting is spaces: >>> Objects_and_Selections/color_objects.py has 8 tab lines and 34 space >> lines >>> ThirdParty_Scripts/WFMesh.py has 52 tab lines and 21 space lines >>> biochemical_scripts/pucker.py has 167 tab lines and 5 space lines >>> math_geo_cgo/modevectors.py has 160 tab lines and 2 space lines >>> structural_biology_scripts/DynoPlot.py has 82 tab lines and 27 space >> lines >>> structural_biology_scripts/Rotamers.py has 86 tab lines and 22 space >> lines >>> structural_biology_scripts/kabsch.py has 51 tab lines and 4 space >> lines >>> Second, there are files where the indenting inside a line switches >>> back and forth (numbers are the counts of lines that have both tabs >>> and spaces in indenting): >>> Objects_and_Selections/color_objects.py: 19 >>> ThirdParty_Scripts/WFMesh.py: 29 >>> ThirdParty_Scripts/transform_odb.py: 6 >>> math_geo_cgo/modevectors.py: 12 >>> structural_biology_scripts/DynoPlot.py: 83 >>> structural_biology_scripts/Rotamers.py: 86 >>> structural_biology_scripts/kabsch.py: 1 >>> >>> I've tried using pindent.py ( >>> http://svn.python.org/projects/python/trunk/Tools/scripts/pindent.py >> ) >>> and PythonTidy ( http://pypi.python.org/pypi/PythonTidy/ ) to >>> generally fix these, but they both run into problems. Is there a >>> general solution out in the python world to automatically fix this? >> I >>> don't care whether it produces tabs or spaces. I just want one or >> the >>> other. If someone points me to something, I'm more than willing to >>> run it on these scripts, push them back to github and copy them back >>> onto the wiki. >>> -- Siv Midtun Hollup PhD Student Dept. of Informatics University of Bergen, Norway s...@ii.uib.no - Blessed are the flexible, for they can be tied into knots. - -- The Planet: dedicated and managed hosting, cloud storage, colocation Stay online with enterprise data centers and the best network in the business Choose flexible plans and management services without long-term contracts Personal 24x7 support from experience hosting pros just a phone call away. http://p.sf.net/sfu/theplanet-com ___ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
Re: [PyMOL] Whitespacing?
Be careful if you use tab mixed with spaces and prefer 4-space indentation. Python interprets tabs as 8-space indent. See python document below: http://docs.python.org/reference/lexical_analysis.html#indentation HTH -Original Message- From: Schubert, Carsten [PRDUS] [mailto:cschu...@its.jnj.com] Sent: Wednesday, January 27, 2010 1:31 AM To: Jason Vertrees; David Hall Cc: pymol-users Subject: Re: [PyMOL] Whitespacing? Not much of a help, but WingIDE Professional Edition has a very good indentation manager, which takes care of the mixed/space tab issues. If you are working in python frequently it is a worthwhile investment. Cheers, Carsten > -Original Message- > From: Jason Vertrees [mailto:jason.vertr...@schrodinger.com] > Sent: Tuesday, January 26, 2010 10:10 AM > To: David Hall > Cc: pymol-users > Subject: Re: [PyMOL] Whitespacing? > > David, > > Oh, the joys of open-source. Here's my solution for you: > (1) load your file in your favorite editor > (2) determine user-desired tab stop setting > (3) convert all tabs to spaces in your editor (or search replace tabs > with X-spaces) > (4) save your file > > One warning though, I have seen some interpreters crash when they > encounter spaces over tabs. > > -- Jason > > On Tue, Jan 26, 2010 at 9:12 AM, David Hall > wrote: > > During my editing of dynoplot.py, I noticed that there were some > > whitespace issues. Normally I consider whitespace a bikeshedding > > topic, but in python, it is significant, so it matters. When tabs > and > > spaces are mixed, our own personal settings for how tabs are > displayed > > in an editor makes a huge difference in whether the script is > > understandable. > > > > I checked out the git repo of pymol scripts ( > > http://github.com/jlec/Pymol-script-repo/ ) and did some analysis > > > > First, these files switch between some lines where all indenting is > > tabs to lines where all indenting is spaces: > > Objects_and_Selections/color_objects.py has 8 tab lines and 34 space > lines > > ThirdParty_Scripts/WFMesh.py has 52 tab lines and 21 space lines > > biochemical_scripts/pucker.py has 167 tab lines and 5 space lines > > math_geo_cgo/modevectors.py has 160 tab lines and 2 space lines > > structural_biology_scripts/DynoPlot.py has 82 tab lines and 27 space > lines > > structural_biology_scripts/Rotamers.py has 86 tab lines and 22 space > lines > > structural_biology_scripts/kabsch.py has 51 tab lines and 4 space > lines > > > > Second, there are files where the indenting inside a line switches > > back and forth (numbers are the counts of lines that have both tabs > > and spaces in indenting): > > Objects_and_Selections/color_objects.py: 19 > > ThirdParty_Scripts/WFMesh.py: 29 > > ThirdParty_Scripts/transform_odb.py: 6 > > math_geo_cgo/modevectors.py: 12 > > structural_biology_scripts/DynoPlot.py: 83 > > structural_biology_scripts/Rotamers.py: 86 > > structural_biology_scripts/kabsch.py: 1 > > > > I've tried using pindent.py ( > > http://svn.python.org/projects/python/trunk/Tools/scripts/pindent.py > ) > > and PythonTidy ( http://pypi.python.org/pypi/PythonTidy/ ) to > > generally fix these, but they both run into problems. Is there a > > general solution out in the python world to automatically fix this? > I > > don't care whether it produces tabs or spaces. I just want one or > the > > other. If someone points me to something, I'm more than willing to > > run it on these scripts, push them back to github and copy them back > > onto the wiki. > > > > -David > > > > - > - > > The Planet: dedicated and managed hosting, cloud storage, colocation > > Stay online with enterprise data centers and the best network in the > business > > Choose flexible plans and management services without long-term > contracts > > Personal 24x7 support from experience hosting pros just a phone call > away. > > http://p.sf.net/sfu/theplanet-com > > ___ > > PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) > > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > > Archives: http://www.mail-archive.com/pymol- > us...@lists.sourceforge.net > > > > > > -- > Jason Vertrees, PhD > PyMOL Product Manager > Schrodinger, LLC > > (e) jason.vertr...@schrodinger.com > (o) +1 (603) 374-7120 > >
Re: [PyMOL] Whitespacing?
Hi,
On Tue, 26 Jan 2010 10:48:58 -0600 Michael Zimmermann
wrote:
> If you have a lot of files to do this to, I would suggest learning at
> least a little bit of perl. It might not be as nice an option as a
> python tab manager (depending on your point of view), though.
Or even better, try sed (the following is in a bash-type shell)!
for file in *.py; sed 's/ / /g' < $file >${file}.notab
In order to type the "tab" key in the command line, type the key combination
"CTRL-V" followed by the Tab key.
I use vim as my editor and I have it set to always use spaces and not tabs
using the "expandtab" setting, so when I hit the "Tab" key, it just inserts
two spaces for me.
Cheers,
Rob
--
Robert L. Campbell, Ph.D.
Senior Research Associate/Adjunct Assistant Professor
Botterell Hall Rm 644
Department of Biochemistry, Queen's University,
Kingston, ON K7L 3N6 Canada
Tel: 613-533-6821Fax: 613-533-2497
http://pldserver1.biochem.queensu.ca/~rlc
--
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Stay online with enterprise data centers and the best network in the business
Choose flexible plans and management services without long-term contracts
Personal 24x7 support from experience hosting pros just a phone call away.
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Re: [PyMOL] Whitespacing?
Try the expand command on linux or google for "sed tab to space
replacement".
Marius
On Tue, Jan 26, 2010 at 5:48 PM, Michael Zimmermann wrote:
> If you have a lot of files to do this to, I would suggest learning at
> least a little bit of perl. It might not be as nice an option as a
> python tab manager (depending on your point of view), though.
>
> Perl uses regular expressions. In case you'd like to see how to do
> your tab-space replacement, the following bit of code would convert
> tabs to 4 spaces.
>
> Take care,
>
> Mike Z
>
> #--
> use strict;
> use warnings;
> my $file = $ARGV[0];
> open(IN,$file) or die $!;
> open(OUT,">".$file."notab") or die $!;
> while(){
> $_ =~ s/\t//g;
> print OUT $_;
> }
> close(IN);
> close(OUT);
> exit;
> #--
>
> On Tue, Jan 26, 2010 at 9:09 AM, Jason Vertrees
> wrote:
> > David,
> >
> > Oh, the joys of open-source. Here's my solution for you:
> > (1) load your file in your favorite editor
> > (2) determine user-desired tab stop setting
> > (3) convert all tabs to spaces in your editor (or search replace tabs
> > with X-spaces)
> > (4) save your file
> >
> > One warning though, I have seen some interpreters crash when they
> > encounter spaces over tabs.
> >
> > -- Jason
> >
> > On Tue, Jan 26, 2010 at 9:12 AM, David Hall
> wrote:
> >> During my editing of dynoplot.py, I noticed that there were some
> >> whitespace issues. Normally I consider whitespace a bikeshedding
> >> topic, but in python, it is significant, so it matters. When tabs and
> >> spaces are mixed, our own personal settings for how tabs are displayed
> >> in an editor makes a huge difference in whether the script is
> >> understandable.
> >>
> >> I checked out the git repo of pymol scripts (
> >> http://github.com/jlec/Pymol-script-repo/ ) and did some analysis
> >>
> >> First, these files switch between some lines where all indenting is
> >> tabs to lines where all indenting is spaces:
> >> Objects_and_Selections/color_objects.py has 8 tab lines and 34 space
> lines
> >> ThirdParty_Scripts/WFMesh.py has 52 tab lines and 21 space lines
> >> biochemical_scripts/pucker.py has 167 tab lines and 5 space lines
> >> math_geo_cgo/modevectors.py has 160 tab lines and 2 space lines
> >> structural_biology_scripts/DynoPlot.py has 82 tab lines and 27 space
> lines
> >> structural_biology_scripts/Rotamers.py has 86 tab lines and 22 space
> lines
> >> structural_biology_scripts/kabsch.py has 51 tab lines and 4 space lines
> >>
> >> Second, there are files where the indenting inside a line switches
> >> back and forth (numbers are the counts of lines that have both tabs
> >> and spaces in indenting):
> >> Objects_and_Selections/color_objects.py: 19
> >> ThirdParty_Scripts/WFMesh.py: 29
> >> ThirdParty_Scripts/transform_odb.py: 6
> >> math_geo_cgo/modevectors.py: 12
> >> structural_biology_scripts/DynoPlot.py: 83
> >> structural_biology_scripts/Rotamers.py: 86
> >> structural_biology_scripts/kabsch.py: 1
> >>
> >> I've tried using pindent.py (
> >> http://svn.python.org/projects/python/trunk/Tools/scripts/pindent.py )
> >> and PythonTidy ( http://pypi.python.org/pypi/PythonTidy/ ) to
> >> generally fix these, but they both run into problems. Is there a
> >> general solution out in the python world to automatically fix this? I
> >> don't care whether it produces tabs or spaces. I just want one or the
> >> other. If someone points me to something, I'm more than willing to
> >> run it on these scripts, push them back to github and copy them back
> >> onto the wiki.
> >>
> >> -David
> >>
> >>
> --
> >> The Planet: dedicated and managed hosting, cloud storage, colocation
> >> Stay online with enterprise data centers and the best network in the
> business
> >> Choose flexible plans and management services without long-term
> contracts
> >> Personal 24x7 support from experience hosting pros just a phone call
> away.
> >> http://p.sf.net/sfu/theplanet-com
> >> ___
> >> PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net)
> >> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
> >> Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
> >>
> >
> >
> >
> > --
> > Jason Vertrees, PhD
> > PyMOL Product Manager
> > Schrodinger, LLC
> >
> > (e) jason.vertr...@schrodinger.com
> > (o) +1 (603) 374-7120
> >
> >
> --
> > The Planet: dedicated and managed hosting, cloud storage, colocation
> > Stay online with enterprise data centers and the best network in the
> business
> > Choose flexible plans and management services without long-term contracts
> > Personal 24x7 support from experience hosting pros just a phone call
> away.
> > http://p.sf.net/sfu/theplanet-com
> > ___
Re: [PyMOL] Whitespacing?
If you have a lot of files to do this to, I would suggest learning at
least a little bit of perl. It might not be as nice an option as a
python tab manager (depending on your point of view), though.
Perl uses regular expressions. In case you'd like to see how to do
your tab-space replacement, the following bit of code would convert
tabs to 4 spaces.
Take care,
Mike Z
#--
use strict;
use warnings;
my $file = $ARGV[0];
open(IN,$file) or die $!;
open(OUT,">".$file."notab") or die $!;
while(){
$_ =~ s/\t//g;
print OUT $_;
}
close(IN);
close(OUT);
exit;
#--
On Tue, Jan 26, 2010 at 9:09 AM, Jason Vertrees
wrote:
> David,
>
> Oh, the joys of open-source. Here's my solution for you:
> (1) load your file in your favorite editor
> (2) determine user-desired tab stop setting
> (3) convert all tabs to spaces in your editor (or search replace tabs
> with X-spaces)
> (4) save your file
>
> One warning though, I have seen some interpreters crash when they
> encounter spaces over tabs.
>
> -- Jason
>
> On Tue, Jan 26, 2010 at 9:12 AM, David Hall wrote:
>> During my editing of dynoplot.py, I noticed that there were some
>> whitespace issues. Normally I consider whitespace a bikeshedding
>> topic, but in python, it is significant, so it matters. When tabs and
>> spaces are mixed, our own personal settings for how tabs are displayed
>> in an editor makes a huge difference in whether the script is
>> understandable.
>>
>> I checked out the git repo of pymol scripts (
>> http://github.com/jlec/Pymol-script-repo/ ) and did some analysis
>>
>> First, these files switch between some lines where all indenting is
>> tabs to lines where all indenting is spaces:
>> Objects_and_Selections/color_objects.py has 8 tab lines and 34 space lines
>> ThirdParty_Scripts/WFMesh.py has 52 tab lines and 21 space lines
>> biochemical_scripts/pucker.py has 167 tab lines and 5 space lines
>> math_geo_cgo/modevectors.py has 160 tab lines and 2 space lines
>> structural_biology_scripts/DynoPlot.py has 82 tab lines and 27 space lines
>> structural_biology_scripts/Rotamers.py has 86 tab lines and 22 space lines
>> structural_biology_scripts/kabsch.py has 51 tab lines and 4 space lines
>>
>> Second, there are files where the indenting inside a line switches
>> back and forth (numbers are the counts of lines that have both tabs
>> and spaces in indenting):
>> Objects_and_Selections/color_objects.py: 19
>> ThirdParty_Scripts/WFMesh.py: 29
>> ThirdParty_Scripts/transform_odb.py: 6
>> math_geo_cgo/modevectors.py: 12
>> structural_biology_scripts/DynoPlot.py: 83
>> structural_biology_scripts/Rotamers.py: 86
>> structural_biology_scripts/kabsch.py: 1
>>
>> I've tried using pindent.py (
>> http://svn.python.org/projects/python/trunk/Tools/scripts/pindent.py )
>> and PythonTidy ( http://pypi.python.org/pypi/PythonTidy/ ) to
>> generally fix these, but they both run into problems. Is there a
>> general solution out in the python world to automatically fix this? I
>> don't care whether it produces tabs or spaces. I just want one or the
>> other. If someone points me to something, I'm more than willing to
>> run it on these scripts, push them back to github and copy them back
>> onto the wiki.
>>
>> -David
>>
>> --
>> The Planet: dedicated and managed hosting, cloud storage, colocation
>> Stay online with enterprise data centers and the best network in the business
>> Choose flexible plans and management services without long-term contracts
>> Personal 24x7 support from experience hosting pros just a phone call away.
>> http://p.sf.net/sfu/theplanet-com
>> ___
>> PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net)
>> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
>> Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
>>
>
>
>
> --
> Jason Vertrees, PhD
> PyMOL Product Manager
> Schrodinger, LLC
>
> (e) jason.vertr...@schrodinger.com
> (o) +1 (603) 374-7120
>
> --
> The Planet: dedicated and managed hosting, cloud storage, colocation
> Stay online with enterprise data centers and the best network in the business
> Choose flexible plans and management services without long-term contracts
> Personal 24x7 support from experience hosting pros just a phone call away.
> http://p.sf.net/sfu/theplanet-com
> ___
> PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net)
> Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users
> Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
>
--
The Planet: dedicated and managed hosting, cloud storage, colocation
Stay online with enterprise data ce
Re: [PyMOL] Whitespacing?
Not much of a help, but WingIDE Professional Edition has a very good indentation manager, which takes care of the mixed/space tab issues. If you are working in python frequently it is a worthwhile investment. Cheers, Carsten > -Original Message- > From: Jason Vertrees [mailto:jason.vertr...@schrodinger.com] > Sent: Tuesday, January 26, 2010 10:10 AM > To: David Hall > Cc: pymol-users > Subject: Re: [PyMOL] Whitespacing? > > David, > > Oh, the joys of open-source. Here's my solution for you: > (1) load your file in your favorite editor > (2) determine user-desired tab stop setting > (3) convert all tabs to spaces in your editor (or search replace tabs > with X-spaces) > (4) save your file > > One warning though, I have seen some interpreters crash when they > encounter spaces over tabs. > > -- Jason > > On Tue, Jan 26, 2010 at 9:12 AM, David Hall > wrote: > > During my editing of dynoplot.py, I noticed that there were some > > whitespace issues. Normally I consider whitespace a bikeshedding > > topic, but in python, it is significant, so it matters. When tabs > and > > spaces are mixed, our own personal settings for how tabs are > displayed > > in an editor makes a huge difference in whether the script is > > understandable. > > > > I checked out the git repo of pymol scripts ( > > http://github.com/jlec/Pymol-script-repo/ ) and did some analysis > > > > First, these files switch between some lines where all indenting is > > tabs to lines where all indenting is spaces: > > Objects_and_Selections/color_objects.py has 8 tab lines and 34 space > lines > > ThirdParty_Scripts/WFMesh.py has 52 tab lines and 21 space lines > > biochemical_scripts/pucker.py has 167 tab lines and 5 space lines > > math_geo_cgo/modevectors.py has 160 tab lines and 2 space lines > > structural_biology_scripts/DynoPlot.py has 82 tab lines and 27 space > lines > > structural_biology_scripts/Rotamers.py has 86 tab lines and 22 space > lines > > structural_biology_scripts/kabsch.py has 51 tab lines and 4 space > lines > > > > Second, there are files where the indenting inside a line switches > > back and forth (numbers are the counts of lines that have both tabs > > and spaces in indenting): > > Objects_and_Selections/color_objects.py: 19 > > ThirdParty_Scripts/WFMesh.py: 29 > > ThirdParty_Scripts/transform_odb.py: 6 > > math_geo_cgo/modevectors.py: 12 > > structural_biology_scripts/DynoPlot.py: 83 > > structural_biology_scripts/Rotamers.py: 86 > > structural_biology_scripts/kabsch.py: 1 > > > > I've tried using pindent.py ( > > http://svn.python.org/projects/python/trunk/Tools/scripts/pindent.py > ) > > and PythonTidy ( http://pypi.python.org/pypi/PythonTidy/ ) to > > generally fix these, but they both run into problems. Is there a > > general solution out in the python world to automatically fix this? > I > > don't care whether it produces tabs or spaces. I just want one or > the > > other. If someone points me to something, I'm more than willing to > > run it on these scripts, push them back to github and copy them back > > onto the wiki. > > > > -David > > > > - > - > > The Planet: dedicated and managed hosting, cloud storage, colocation > > Stay online with enterprise data centers and the best network in the > business > > Choose flexible plans and management services without long-term > contracts > > Personal 24x7 support from experience hosting pros just a phone call > away. > > http://p.sf.net/sfu/theplanet-com > > ___ > > PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) > > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > > Archives: http://www.mail-archive.com/pymol- > us...@lists.sourceforge.net > > > > > > -- > Jason Vertrees, PhD > PyMOL Product Manager > Schrodinger, LLC > > (e) jason.vertr...@schrodinger.com > (o) +1 (603) 374-7120 > > --- > --- > The Planet: dedicated and managed hosting, cloud storage, colocation > Stay online with enterprise data centers and the best network in the > business > Choose flexible plans and management services without long-term > contracts > Personal 24x7 support from experience hosting pros just a phone call > away. > http://p.sf.net/sfu/theplanet-com > ___ > PyMOL-use
Re: [PyMOL] Whitespacing?
David, Oh, the joys of open-source. Here's my solution for you: (1) load your file in your favorite editor (2) determine user-desired tab stop setting (3) convert all tabs to spaces in your editor (or search replace tabs with X-spaces) (4) save your file One warning though, I have seen some interpreters crash when they encounter spaces over tabs. -- Jason On Tue, Jan 26, 2010 at 9:12 AM, David Hall wrote: > During my editing of dynoplot.py, I noticed that there were some > whitespace issues. Normally I consider whitespace a bikeshedding > topic, but in python, it is significant, so it matters. When tabs and > spaces are mixed, our own personal settings for how tabs are displayed > in an editor makes a huge difference in whether the script is > understandable. > > I checked out the git repo of pymol scripts ( > http://github.com/jlec/Pymol-script-repo/ ) and did some analysis > > First, these files switch between some lines where all indenting is > tabs to lines where all indenting is spaces: > Objects_and_Selections/color_objects.py has 8 tab lines and 34 space lines > ThirdParty_Scripts/WFMesh.py has 52 tab lines and 21 space lines > biochemical_scripts/pucker.py has 167 tab lines and 5 space lines > math_geo_cgo/modevectors.py has 160 tab lines and 2 space lines > structural_biology_scripts/DynoPlot.py has 82 tab lines and 27 space lines > structural_biology_scripts/Rotamers.py has 86 tab lines and 22 space lines > structural_biology_scripts/kabsch.py has 51 tab lines and 4 space lines > > Second, there are files where the indenting inside a line switches > back and forth (numbers are the counts of lines that have both tabs > and spaces in indenting): > Objects_and_Selections/color_objects.py: 19 > ThirdParty_Scripts/WFMesh.py: 29 > ThirdParty_Scripts/transform_odb.py: 6 > math_geo_cgo/modevectors.py: 12 > structural_biology_scripts/DynoPlot.py: 83 > structural_biology_scripts/Rotamers.py: 86 > structural_biology_scripts/kabsch.py: 1 > > I've tried using pindent.py ( > http://svn.python.org/projects/python/trunk/Tools/scripts/pindent.py ) > and PythonTidy ( http://pypi.python.org/pypi/PythonTidy/ ) to > generally fix these, but they both run into problems. Is there a > general solution out in the python world to automatically fix this? I > don't care whether it produces tabs or spaces. I just want one or the > other. If someone points me to something, I'm more than willing to > run it on these scripts, push them back to github and copy them back > onto the wiki. > > -David > > -- > The Planet: dedicated and managed hosting, cloud storage, colocation > Stay online with enterprise data centers and the best network in the business > Choose flexible plans and management services without long-term contracts > Personal 24x7 support from experience hosting pros just a phone call away. > http://p.sf.net/sfu/theplanet-com > ___ > PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net > -- Jason Vertrees, PhD PyMOL Product Manager Schrodinger, LLC (e) jason.vertr...@schrodinger.com (o) +1 (603) 374-7120 -- The Planet: dedicated and managed hosting, cloud storage, colocation Stay online with enterprise data centers and the best network in the business Choose flexible plans and management services without long-term contracts Personal 24x7 support from experience hosting pros just a phone call away. http://p.sf.net/sfu/theplanet-com ___ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
[PyMOL] Whitespacing?
During my editing of dynoplot.py, I noticed that there were some whitespace issues. Normally I consider whitespace a bikeshedding topic, but in python, it is significant, so it matters. When tabs and spaces are mixed, our own personal settings for how tabs are displayed in an editor makes a huge difference in whether the script is understandable. I checked out the git repo of pymol scripts ( http://github.com/jlec/Pymol-script-repo/ ) and did some analysis First, these files switch between some lines where all indenting is tabs to lines where all indenting is spaces: Objects_and_Selections/color_objects.py has 8 tab lines and 34 space lines ThirdParty_Scripts/WFMesh.py has 52 tab lines and 21 space lines biochemical_scripts/pucker.py has 167 tab lines and 5 space lines math_geo_cgo/modevectors.py has 160 tab lines and 2 space lines structural_biology_scripts/DynoPlot.py has 82 tab lines and 27 space lines structural_biology_scripts/Rotamers.py has 86 tab lines and 22 space lines structural_biology_scripts/kabsch.py has 51 tab lines and 4 space lines Second, there are files where the indenting inside a line switches back and forth (numbers are the counts of lines that have both tabs and spaces in indenting): Objects_and_Selections/color_objects.py: 19 ThirdParty_Scripts/WFMesh.py: 29 ThirdParty_Scripts/transform_odb.py: 6 math_geo_cgo/modevectors.py: 12 structural_biology_scripts/DynoPlot.py: 83 structural_biology_scripts/Rotamers.py: 86 structural_biology_scripts/kabsch.py: 1 I've tried using pindent.py ( http://svn.python.org/projects/python/trunk/Tools/scripts/pindent.py ) and PythonTidy ( http://pypi.python.org/pypi/PythonTidy/ ) to generally fix these, but they both run into problems. Is there a general solution out in the python world to automatically fix this? I don't care whether it produces tabs or spaces. I just want one or the other. If someone points me to something, I'm more than willing to run it on these scripts, push them back to github and copy them back onto the wiki. -David -- The Planet: dedicated and managed hosting, cloud storage, colocation Stay online with enterprise data centers and the best network in the business Choose flexible plans and management services without long-term contracts Personal 24x7 support from experience hosting pros just a phone call away. http://p.sf.net/sfu/theplanet-com ___ PyMOL-users mailing list (PyMOL-users@lists.sourceforge.net) Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users Archives: http://www.mail-archive.com/pymol-users@lists.sourceforge.net
