Partial fix to #22. Laydi will require a project directory to run. If the
project directory does not exist, i.e. if a new project should be created, the
new -n switch is required. New syntax to run laydi is now
{{{
laydi [options] </path/to/project>
}}}
This commit is contained in:
parent
b5d2e8e181
commit
dc8da8823e
27
bin/laydi
27
bin/laydi
@ -3,7 +3,7 @@
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from getopt import getopt
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import os
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import sys
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from laydi import laydi, projectview, workflow, main
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from laydi import laydi, project, projectview, workflow, main
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#import workflows
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from laydi import cfgparse
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import optparse
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@ -73,11 +73,20 @@ def parse_options():
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action='store_true',
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help='Generate configuration file ~/.laydi if it does not exist.')
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op.add_option('-n', '--new-project',
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action='store_true',
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help='Create new project directory.')
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for cf in conf_files:
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if os.path.isfile(cf):
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cp.add_file(cf)
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return cp.parse(op)
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options, params = cp.parse(op)
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if len(params) != 1:
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print "error: project directory must be specified."
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sys.exit(1)
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return options, params
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if __name__ == '__main__':
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import gtk
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@ -86,6 +95,8 @@ if __name__ == '__main__':
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gnome.program_init(PROGRAM_NAME, VERSION)
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options, params = parse_options()
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## Workflow setup
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main.options = options
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for dir in main.options.workflowdir.split(';'):
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@ -112,8 +123,18 @@ if __name__ == '__main__':
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main.set_options(options)
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app = laydi.LaydiApp()
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## Project setup
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prjroot = params[0]
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if not project.is_project_directory(prjroot):
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if options.new_project:
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project.make_project_directory(prjroot)
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else:
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print "error: project directory not found: %s" % prjroot
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print "notice: use the -n option to make a new project"
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sys.exit(2)
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main.set_application(app)
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main.set_projectview(projectview.ProjectView())
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main.set_projectview(projectview.ProjectView(prjroot))
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app.set_projectview(main.projectview)
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app.show()
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429
laydi/project.py
429
laydi/project.py
@ -1,154 +1,305 @@
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import os
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import scipy
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import gobject
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import gtk
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import laydi
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import logger, dataset, plots, main
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import os, os.path
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import sys
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import configobj
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import time
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class Project:
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"""A Project contains datasets, selections etc.
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The project, of which the application has only one at any given time,
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is the container for all datasets, plots and selections in use. The data
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in the project is organized in a gtk.TreeStrore that is displayed in the
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navigator.
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import dataset
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NAME = "laydi-cmd"
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VERSION = "0.1.0"
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PROJECT_VERSION_STRING = "Laydi project version 1"
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def is_project_directory(dirname):
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"""Verifies that a directory is a laydi project"""
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if not os.path.isdir(dirname):
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return False
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## Verify that the version is correct.
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version_fn = os.path.join(dirname, "VERSION")
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if not os.path.exists(version_fn):
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return False
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fd = open(version_fn)
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line = fd.readline()
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fd.close()
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if line.strip() != PROJECT_VERSION_STRING:
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return False
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## Require directories to be present.
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if not os.path.isdir(os.path.join(dirname, "annotations")):
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return False
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if not os.path.isdir(os.path.join(dirname, "data")):
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return False
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if not os.path.isdir(os.path.join(dirname, "selections")):
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return False
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if not os.path.isdir(os.path.join(dirname, "exports")):
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return False
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## If no tests failed, return True
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return True
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def make_project_directory(dirname, force=False):
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"""Creates a project directory
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force: ignore that directory exists and proceed anyway.
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"""
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if os.path.exists(dirname) and not force:
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return False
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def __init__(self, name="Testing"):
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self.data_tree = gtk.TreeStore(str,
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str,
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object,
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str,
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str,
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gobject.TYPE_OBJECT,
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float)
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self.name = name
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self.dim_names = []
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self._selection_observers = []
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self._dataset_observers = []
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self.current_data = []
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self.datasets = []
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self.sel_obj = dataset.Selection('Current Selection')
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self.selections = []
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self._last_selection = None
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self._dataset_iter_map = {}
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rootdir = dirname
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anndir = os.path.join(dirname, "annotations")
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seldir = os.path.join(dirname, "selections")
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datadir = os.path.join(dirname, "data")
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exportdir = os.path.join(dirname, "exports")
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version_file_path = os.path.join(dirname, "VERSION")
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def add_selection_observer(self, observer):
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self._selection_observers.append(observer)
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observer.selection_changed(None, self.get_selection())
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os.makedirs(rootdir)
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for d in [anndir, seldir, datadir, exportdir]:
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os.mkdir(d)
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def notify_selection_listeners(self, dim_name):
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"""Notifies observers"""
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for observer in self._selection_observers:
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observer.selection_changed(dim_name, self.get_selection())
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fd = open(version_file_path, "w")
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print >> fd, PROJECT_VERSION_STRING
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fd.close()
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def add_dataset_observer(self, observer):
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self._dataset_observers.append(observer)
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observer.dataset_changed()
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def notify_dataset_listeners(self):
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"""Notifies observers when new datasets are added"""
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for observer in self._dataset_observers:
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observer.dataset_changed()
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class Universe(object):
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"""A Universe is a collection of all existing identifiers in a set of datasets"""
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def __init__(self):
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self.refcount = {}
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def register_dim(self, dim):
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"""Increase reference count for identifiers in Dimension object dim"""
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d = self.refcount.get(dim.name, None)
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if d == None:
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d = {}
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self.refcount[dim.name] = d
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for i in dim:
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d[i] = d.get(i, 0) + 1
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def set_selection(self, dim_name, selection):
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"""Sets a current selection and notify observers"""
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self.sel_obj[dim_name] = set(selection)
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self.notify_selection_listeners(dim_name)
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self._last_selection = selection
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def register_ds(self, ds):
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"""Increase reference count for identifiers in all Dimensions of dataset ds"""
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for dim in ds.dims:
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self.register_dim(dim)
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def get_selection(self):
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"""Returns the current selection object"""
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return self.sel_obj
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def delete_data(self, it):
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"""Delete elements from the project."""
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child = self.data_tree.iter_children(it)
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while child != None:
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c = self.data_tree.iter_next(child)
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self.delete_data(child)
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child = c
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main.application.main_view.remove_view(self.data_tree.get(it, 2)[0])
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self.data_tree.remove(it)
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def add_data(self, parents, data, fun='Function'):
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"""Adds a set of data and plots to the navigator.
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This method is usually called after a Function in a workflow
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has finished and returns its output."""
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if len(parents) > 0:
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parent_iter = self._dataset_iter_map[parents[0]]
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else:
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parent_iter = None
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# Add the function node to the tree
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icon = laydi.icon_factory.get("folder_grey")
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it = self.data_tree_insert(parent_iter, fun, None, None, "black", icon)
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# Add all returned datasets/plots/selections
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for d in data:
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# Any kind of dataset
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if isinstance(d, dataset.Dataset):
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if isinstance(d, dataset.GraphDataset):
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icon = laydi.icon_factory.get("graph_dataset")
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elif isinstance(d, dataset.CategoryDataset):
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icon = laydi.icon_factory.get("category_dataset")
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else:
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icon = laydi.icon_factory.get("dataset")
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self.add_dataset(d)
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self.data_tree_insert(it, d.get_name(), d, None, "black", icon)
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# Any kind of plot
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elif isinstance(d, plots.Plot):
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icon = laydi.icon_factory.get("line_plot")
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self.data_tree_insert(it, d.get_title(), d, None, "black", icon)
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d.set_selection_listener(self.set_selection)
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self._selection_observers.append(d)
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# Selections are not added to the data tree
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elif isinstance(d, dataset.Selection):
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self.add_selection(d)
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def data_tree_insert(self, parent, text, data, bg, fg, icon, selected = 0):
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"""Inserts data into the tree view.
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@param text: The title of the object.
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@param data: A dataset, plot or function object.
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@param bg: Background color.
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@param fg: Foreground (font) color.
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@param icon: Pixmap icon.
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def unregister_dim(self, dim):
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"""Update reference count for identifiers in Dimension object dim
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Update reference count for identifiers in Dimension object dim, and remove all
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identifiers with a reference count of 0, as they do not (by definition) exist
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any longer.
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"""
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tree = self.data_tree
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it = tree.append(parent)
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tree[it] = [text, type(data), data, bg, fg, icon, selected]
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self._dataset_iter_map[data] = it
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return it
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ids = self.refcount[dim.name]
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for i in dim:
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refcount = ids[i]
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if refcount == 1:
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ids.pop(i)
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else:
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ids[i] -= 1
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if len(ids) == 0:
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self.refcount.pop(dim.name)
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def add_dataset(self, dataset):
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"""Appends a new Dataset to the project."""
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logger.log('debug','Adding dataset: %s' %dataset.get_name())
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self.datasets.append(dataset)
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for dim_name in dataset.get_all_dims():
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if dim_name not in self.dim_names:
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self.dim_names.append(dim_name)
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self.sel_obj[dim_name] = set()
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self.notify_selection_listeners(dim_name)
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self.notify_dataset_listeners()
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def add_selection(self, selection):
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"""Adds a new selection to the project."""
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self.selections.append(selection)
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self.notify_dataset_listeners()
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def unregister_ds(self, ds):
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"""Update reference count for identifiers along Dimensions in Dataset ds.
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Update reference count for identifiers along all Dimensions in
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Dataset ds, and remove all identifiers with a reference count of 0,
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as they do not (by definition) exist any longer.
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"""
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for dim in ds:
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self.register_dim(dim)
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def register(self, obj):
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if isinstance(obj, Dataset):
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self.register_ds(obj)
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else:
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self.register_dim(obj)
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def unregister(self, obj):
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if isinstance(obj, Dataset):
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self.unregister_ds(obj)
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else:
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self.unregister_dim(obj)
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def __getent___(self, dimname):
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return set(self.references[dimname].keys())
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def __iter__(self):
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return self.references.keys().__iter__()
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class Dimension(object):
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"""A Dimension represents the set of identifiers an object has along an axis.
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"""
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def __init__(self, name, ids=[]):
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self.name = name
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self.idset = set(ids)
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self.idlist = list(ids)
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if len(self.idset) != len(self.idlist):
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raise Exception("Duplicate identifiers are not allowed")
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def __getitem__(self, element):
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return self.idlist[element]
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def __getslice__(self, start, end):
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return self.idlist[start:end]
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def __contains__(self, element):
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return self.idset.__contains__(element)
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def object_at(self, path):
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"""Returns the object at a given path in the tree."""
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it = self.get_iter(path)
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obj = self[it][2]
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if obj:
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obj.show()
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return obj
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def __str__(self):
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return "%s: %s" % (self.name, str(self.idlist))
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#def set_current_data(self, obj):
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# self.current_data = obj
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def __len__(self):
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return len(self.idlist)
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def __iter__(self):
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return iter(self.idlist)
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def intersection(self, dim):
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return self.idset.intersection(dim.idset)
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def as_tuple(self):
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return (self.name, self.idlist)
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class Directory(object):
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def __init__(self, path):
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self.path = path
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self.files = set()
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self.timestamp = -1
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self.update()
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def update(self):
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now = time.time()
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newfiles = set(os.listdir(self.path))
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for fn in newfiles - self.files:
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if os.path.isdir(os.path.join(self.path, fn)):
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self.dir_created(fn)
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else:
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self.file_created(fn)
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for fn in self.files - newfiles:
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if os.path.isdir(os.path.join(self.path, fn)):
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self.dir_deleted(fn)
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else:
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self.file_removed(fn)
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for fn in self.files.intersection(newfiles):
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filepath = os.path.join(self.path, fn)
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if os.path.getctime(filepath) >= self.timestamp:
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if os.path.isdir(filepath):
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self.dir_changed(fn)
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else:
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self.file_changed(fn)
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self.files = newfiles
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self.timestamp = now
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def file_created(self, fn):
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print "file created: %s" % fn
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pass
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def file_changed(self, fn):
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print "file changed: %s" % fn
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pass
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def file_removed(self, fn):
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print "file removed: %s" % fn
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pass
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def dir_created(self, fn):
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print "directory created: %s" % fn
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pass
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def dir_changed(self, fn):
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print "directory changed: %s" % fn
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pass
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def dir_removed(self, fn):
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print "directory removed: %s" % fn
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pass
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class DataDirectory(Directory):
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def __init__(self, dirname, project):
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self.project = project
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self.datasets= []
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self.dsfiles = {}
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Directory.__init__(self, dirname)
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def file_created(self, fn):
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"""Called from update() when new files are created.
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Load new datasets that have appeared since last update.
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"""
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filepath = os.path.join(self.path, fn)
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name, ext = os.path.splitext(fn)
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if ext == ".ftsv":
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ds = dataset.read_ftsv(filepath)
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self.datasets.append(ds)
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self.dsfiles[fn] = ds
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def file_changed(self, fn):
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"""Called from update() when files are changed.
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Delete old dataset and load the new one when dataset files
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have been changed.
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"""
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filepath = os.path.join(self.path, fn)
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name, ext = os.path.splitext(fn)
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print self.datasets
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if ext == ".ftsv":
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oldds = self.dsfiles[fn]
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self.datasets.remove(oldds)
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ds = dataset.read_ftsv(filepath)
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self.datasets.append(ds)
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self.dsfiles[fn] = ds
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print self.datasets
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def file_removed(self, fn):
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"""Called from update() when a file is deleted
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Removes the associated dataset if a dataset file is removed.
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"""
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filepath = os.path.join(self.path, fn)
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name, ext = os.path.splitext(fn)
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if ext == ".ftsv":
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ds = self.dsfiles[fn]
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self.datasets.remove(ds)
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self.dsfiles.pop(fn)
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def dir_created(self, fn):
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"""Called from update() when a subdirectory is created.
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Instantiate new handlers for the directory if possible.
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"""
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filepath = os.path.join(self.path, fn)
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def SelectionDirectory(object):
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def __init__(self, dirname):
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pass
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class Project(object):
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def __init__(self, dirname):
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"""Opens a project directory. The directory must exist and be a valid project."""
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## Set path names.
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self.rootdir = dirname
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self.anndir = os.path.join(dirname, "annotations")
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self.seldir = os.path.join(dirname, "selections")
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self.datadir = os.path.join(dirname, "data")
|
||||
self.exportdir = os.path.join(dirname, "exports")
|
||||
version_file_path = os.path.join(dirname, "VERSION")
|
||||
|
||||
self.universe = Universe()
|
||||
|
||||
self.data = DataDirectory(self.datadir, self)
|
||||
|
||||
def update(self):
|
||||
print "updating project"
|
||||
self.data.update()
|
||||
|
||||
|
||||
Reference in New Issue
Block a user