def create_settings(self):
self.pipeline = None
self.ipds = []
self.imported_metadata = []
module_explanation = [
"The %s module optionally allows you to extract information" %
self.module_name,
"describing your images (i.e, metadata) which will be stored along",
"with your measurements. This information can be contained in the",
"file name and/or location, or in an external file."
]
self.set_notes([" ".join(module_explanation)])
self.wants_metadata = cps.Binary("Extract metadata?",
False,
doc="""
Do your file or path names or file headers contain information\n
(metadata) you would like to extract and store along with your
measurements?""")
self.extraction_methods = []
self.add_extraction_method(False)
self.extraction_method_count = cps.HiddenCount(
self.extraction_methods, "Extraction method count")
self.add_extraction_method_button = cps.DoSomething(
"Add another extraction method", "Add", self.add_extraction_method)
self.table = cps.Table("", use_sash=True)
self.update_table_button = cps.DoSomething("Update table", "Update",
self.update_table)
def create_settings(self):
self.pipeline = None
self.metadata_keys = {}
module_explanation = [
"The %s module optionally allows you to split your list of images into image subsets"
% self.module_name,
"(groups) which will be processed independently of each other. Examples of",
"groupings include screening batches, microtiter plates, time-lapse movies, etc."
]
self.set_notes([" ".join(module_explanation)])
self.wants_groups = cps.Binary("Do you want to group your images?",
False,
doc="""
Select <i>%(YES)s</i> if you need to split your images into image subsets (or <i>groups</i>) such that each
group is processed independently of each other. See the main module
help for more details.""" % globals())
self.grouping_text = cps.HTMLText("",
content="""
Each unique metadata value (or combination of values)
will be defined as a group""",
size=(30, 2))
self.grouping_metadata = []
self.grouping_metadata_count = cps.HiddenCount(
self.grouping_metadata, "grouping metadata count")
self.add_grouping_metadata(can_remove=False)
self.add_grouping_metadata_button = cps.DoSomething(
"", "Add another metadata item", self.add_grouping_metadata)
self.grouping_list = cps.Table("Grouping list",
min_size=(300, 100),
doc="""
This list shows the unique values of the selected metadata under the "Group" column; each of the unique values
comprises a group. The "Count" column shows the number of image sets that included in a given group; this
is useful as a "sanity check", to make sure that the expected number of images are present. For example,
if you are grouping by per-plate metadata from a 384-well assay with 2 sites per well consisting of 3 plates,
you would expect to see 3 groups (each from the 3 unique plate IDs), with 384 wells × 2 sites/well
= 768 image sets in each.""")
self.image_set_list = cps.Table("Image sets",
doc="""
This list displays the file name and location of each of the image sets that comprise the
group. For example, if you are grouping by per-plate metadata from a 384-well assay with 2 sites per well
consisting of 3 plates, you would expect to see a table consisting of 3 plates × 384 wells/plate
×2 sites/well = 2304 rows.""")