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Re: [PyMOL] Faster installation of plugins during development
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From: Matthew B. <mp...@pi...> - 2014-07-18 17:47:12
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Hi, Thank you for you suggestions. However, I was looking for a way to do it without restarting pymol if possible. Currently, restarting is the fastest solution, but it still takes up about 10-15 seconds to close pymol, restart it, and have it load the structures I need to test my script. One question that I have is that when pymol starts up, does it load the scripts in the plugin menu into memory? Or when you click on the plugin in the menu, does that read from a file on the disk somewhere? My testing indicates the former, because launching pymol and then editing the script in the ~/.pymol/startup folder does not change the plugin. Ideally, what I would like to be able to do is launch pymol once, then open my plugin. Then if I make some changes to the code in the appropriate folder, if I simply close the tk window and open the plugin from the menu again, it would reopen the plugin with the new changes. Short of that, running some commands in the command line window would also be acceptable. I tried using the execfile command you suggested, but that doesn't seem to do what I want. Did I do something wrong? Thanks again for your help, Matt On 07/18/2014 01:23 PM, Andreas Warnecke wrote: > Hej Matthew, > > 1. The advantage of using the plugin manager is that it will > automatically import all the plugin in the 'plugins' folder of the > 'pymol-script-repo'. This should re-load you plugin if it is located > in a folder managed by the plugin manager. The loading of plugins > located therein occurs automatically. > You can add paths to the plugin manager either manually or using > scripts during startup as described in the link. This is the way I > prefer to do it. Check the examples and linked pages: > http://www.pymolwiki.org/index.php/Plugin_manager > > Note that deliberate import of these plugins changes: > e.g. to import colorama.py post startup use: > import pmg_tk.startup.colorama > # this is shown in the info dialog of the Plugin manager > > A simple restart of PyMOL should re-load your updated plugin with the > changes made, provided the path is added to its list. It may require a > __init__.py file if it is a module. > > 2. if you are testing a plugin you can always have it in a separate > folder that you add yourself. > I sometime use the following to test scripts (added in the > run_on_startup.py): > ######################### > import sys > import os > sys.path.append(os.path.abspath(os.path.join(os.environ['PYMOL_PATH'], > 'plugins_private'))) # contains a folder called private with a (empty) > __init__.py file > import private > ######################### > > 3. Another (maybe deprecated?) way of running your code would be to > use 'execfile'. This would correspond to running the python code in PyMOL. > > ######################### > import os > PYMOLPATH=os.environ['PYMOL_PATH'] > #Append 'plugin' folder # Change to 'Pymol-script-repo' if required > PLUGINPATH=os.path.realpath(os.path.join(PYMOLPATH, 'plugins')) > > # Run every script in the folder and max. one sub-folder that is '.py' > PLUGINPATH_LIST=[os.path.realpath(os.path.join(PLUGINPATH, name)) for > name in os.listdir(PLUGINPATH) if > os.path.isdir(os.path.join(PLUGINPATH, name))] > PLUGINPATH_LIST=[PLUGINPATH]+PLUGINPATH_LIST > print 'paths for plugins: ' > for p in PLUGINPATH_LIST: print p > print > '#-------------------------------------------------------------------------------' > for d in PLUGINPATH_LIST: > print 'Initiating (sub)-directory: '+d > for f in os.listdir(d): > if f=='__init__.py': continue > if f.endswith('.py'): > print "Executing plugin: "+f > execfile(os.path.realpath(os.path.join(d, f))) > else: > if not os.path.isdir(os.path.join(d,f)):print 'skipping > non .py file: '+f > ######################### > > The drawback in 2 or 3 is that this will not work for true plugins > that add menus to PyMOL. > > 4. For simple script or short chunks of code I often copy-paste: > python > #code here > python end > > into the pymol mini shell. This is great for testing part of the code. > > In conclusion I recommend using option. 1 and restart PyMOL after > making changes to the script: The plugin manager is a very practical > addition to PyMOL and I love it. It just needs to be configured > correctly, which is something that changed in comparison to other > PyMOL versions (cf. the link). > Just beware: removing a installed plugin may physically delete the > file. So be sure to backup your script should you decide to remove > scripts or paths that were added to the Plugin Manager. > > Hope this will relieve some of the frustration. > > Cheers, > > Andreas > > > On Fri, Jul 18, 2014 at 5:41 PM, Matthew Baumgartner <mp...@pi... > <mailto:mp...@pi...>> wrote: > > Hi, > So i am working on a pymol plugin (shameless plug > <https://sourceforge.net/projects/clustermolspy/>) and I have been > annoyed how difficult it is to reinstall my plugin so I can see > the effect of the changes I have made. > > Currently, the process is: > Plugin Menu > Plugin Manager > Install New Plugin tab > Choose > File... > Navigate to script file (could be 5-8 clicks plus some > scrolling) > Select plugin directory > Ok > Hit Ok to confirm > reinstall > Hit OK to acknowledge the reinstall > Close the Plugin > Manager > Go to the Plugin Menu > Open my Plugin at the bottom. > > It's a super long process that really hampers rapid development, > which is super annoying when trying to tweak GUI elements. > > So to my question, is there a faster method for getting the plugin > to use the new code? I am open to basically any solution. > In my frustration, I've looked into reverse engineering the Plugin > Manager and making my own little script. But I figured I should > ask here before doing this. > > Thanks, > Matt > > > I'm using Pymol 1.7.1.7 and Ubuntu 13.10. > > > > > > -- > > > ------------------------------------------------------------------------------ > Want fast and easy access to all the code in your enterprise? > Index and > search up to 200,000 lines of code with a free copy of Black Duck > Code Sight - the same software that powers the world's largest code > search on Ohloh, the Black Duck Open Hub! Try it now. > http://p.sf.net/sfu/bds > _______________________________________________ > PyMOL-users mailing list (PyM...@li... > <mailto:PyM...@li...>) > Info Page: https://lists.sourceforge.net/lists/listinfo/pymol-users > Archives: > http://www.mail-archive.com/pym...@li... > > |
