Is it possible to read all of the models from the zip file into jmol as a
different file number? (e.g. if there are 4 pdb files in a zip file - read them
all in as 1.1, 2.1, 3.1 & 4.1). In v11 & 12, this is what happens when one
issues “load xxxx.zip”.
Doug
> On Dec 5, 2016, at 10:10 AM, Robert Hanson <hans...@stolaf.edu> wrote:
>
> You are doing it the way you do it. Jmol has to be pointed to a specific file
> within a ZIP file, not just the file itself. You can access the directory of
> the ZIP file using:
>
> show file "xxxx.zip"
>
> or get that list into an array variable using:
>
> x = load("xxxx.zip").lines
>
> or load the actual file using
>
> x = load("xxxx.zip",true)
>
> For example:
>
> $ x = load("tw1.zip")
> $ print x
> 1.pdb
> 2.pdb
> 3.pdb
> state.spt
> JmolManifest.txt
> Jmol_version_14.0.13__2014-04-01_23.19
>
> $ print x.lines[1]
> 1.pdb
>
> $ x = load("tw1.zip", true)
> $ print x.keys
> $_BINARY_$
> 1.pdb
> 2.pdb
> 3.pdb
> JmolManifest.txt
> Jmol_version_14.0.13__2014-04-01_23.19
> _IMAGE_
> _LEN_
> state.spt
>
> $ print x["1.pdb"]
> ATOM 1 N THR A 5 20.489 36.271 -17.176 1.00 48.85
> N
> ATOM 2 CA THR A 5 19.377 35.347 -16.804 1.00 48.50
> C
> ATOM 3 C THR A 5 19.861 34.234 -15.880 1.00 47.91
> C
> ATOM 4 O THR A 5 20.947 34.323 -15.304 1
> ...
>
>
> Bob
>
>
>
>
>
>
>
>
>
> On Sun, Dec 4, 2016 at 11:18 PM, Douglas Juers <juer...@whitman.edu
> <mailto:juer...@whitman.edu>> wrote:
> Hello,
>
> I have been trying to load a zip file containing pdb files. The zip file was
> created with WinZip.:
>
> $ load twofiles.zip
> script ERROR: java.lang.NullPointerException
> ----
> load <<<<“twofiles.zip"
>
> I can, however, load either file independently:
>
> $ load twofiles.zip|3rbo.pdb
> LIGASE 29-MAR-11 3RBO
> CRYSTAL STRUCTURE OF N10-FORMYLTETRAHYDROFOLATE SYNTHETASE WIT
> AND FORMYLPHOSPHATE
> found biomolecule 1: A, B
> 3RBO
>
> $ load twofiles.zip|3t2h.pdb
> HYDROLASE 22-JUL-11 3T2H
> TETRAGONAL THERMOLYSIN IN THE PRESENCE OF TMAO
> found biomolecule 1: E
> 3T2H
>
> I am using jmol 14.6.4_2016.11.05. The error occurs on both Mac and Windows,
> and also in version 13. Version 12 or 11, however, read the zip file fine,
> loading both molecules.
>
> Any help would be much appreciated!
>
> -Doug
>
> --------------------------
> Douglas Juers
> Associate Professor
> Physics Department
> Program in BBMB
> Whitman College
> Walla Walla, WA 99362
> Phone: 509-527-5229 <tel:%28509%29%20527-5229> FAX: 509-527-5904
> <tel:%28509%29%20527-5904>
> Web: http://www.whitman.edu/~juersdh/ <http://www.whitman.edu/%7Ejuersdh/>
>
>
>
>
>
>
>
>
>
>
>
>
>
>
>
>
> ------------------------------------------------------------------------------
>
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>
>
>
> --
> Robert M. Hanson
> Larson-Anderson Professor of Chemistry
> St. Olaf College
> Northfield, MN
> http://www.stolaf.edu/people/hansonr <http://www.stolaf.edu/people/hansonr>
>
>
> If nature does not answer first what we want,
> it is better to take what answer we get.
>
> -- Josiah Willard Gibbs, Lecture XXX, Monday, February 5, 1900
>
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