Named for an acquisition

This page is generated from the code and must not be edited by hand.

A recording from an instrument and every file whose name contains the recording’s whole name, such as a table a tracking tool named after the movie it read, are grouped together, each file going with the nearest recording of that name in its experiment; so is a file whose whole name, ending included, other files’ names contain (an image viewer’s “movie.tif - C=0.tif”), even when it is no recording, and an image with the label, mask or annotation named after it in its folder (“vol07_labels.nii” beside “vol07.nii”), whatever step the image is at.

named_for_an_acquisition version 2+d1

• Kind of rule: Which files go together (groups). Says which things count as the same in some respect, and so forms groups.

• What it concludes: equivalent, in respect of acquisition_named

• Reasoning: defeasible. A conclusion is usually right, and is retracted when a rule it names concludes against it.

• What it reads: files, which it sorts into groups

Is it available in this version?

Yes. The engine runs it.

What would defeat it

What this rule concludes about something is withdrawn when any of these rules concludes about the same thing:

• filesystem_noise_from_spelling: Files a computer makes on its own, such as .DS_Store or Thumbs.db, are recognized by how their names are spelled and set aside; an office program’s lock file, whose name starts ~$, is left alone, because it means somebody was at work.

• placeholder_from_entry_kind: A shortcut, or a file that claims a size but takes up no room on the disk, is taken to stand in for contents kept somewhere else.

• installed_software_in_folder: A folder is recognized as an installed program, such as a copy of Fiji or a Python environment, from the parts it holds, a name ending .app, its program-style subfolders or a majority of program files; its files are still indexed and read, and rules about experiments leave them alone.

It stands aside beneath every folder one of these rules raises:

• installed_software_in_folder

Parameters

Parameter	Shipped value	May be	What it does
minimum_key_characters	6	whole number, from 1 to 200	The fewest letters and digits an acquisition’s name needs before another file is matched on it, as the experiment rules have it: 01.nd2 names nothing.
whole_name_levels_up	4	whole number, from 0 to 20	How many folders above its own a file’s held whole name is looked for, where its experiment and the folders beside it hold none: the nearest folder holding exactly one file of that name beneath it gives the source, never the pool’s root. A raw branch and an analysis branch side by side meet a few folders up; 4 reaches a project’s top from a day folder’s subfolder; 0 turns the search off.
not_made_from_senses	["backup", "kept_original", "copy"]	list of text	A file named for another whose own extension is spelled only by these senses (hela_table.csv.bak, dapi_fit.py.orig, track_dmso.py.old), or whose words after the name it holds all are while it keeps that file’s format (hela_041_old.nd2), is a backup of it and forms no derivation; the copy rules read it. A copy in another format (hela_041_copy.tif) is a conversion, made from it.
annotation_senses	["annotation", "annotated", "masked"]	list of text	The senses a word means an annotation by, read from the Dictionary: the annotation role (labels, rois), the annotated transformation and a mask. A segmentation is a processed image and is left out.
image_formats	["image_format", "imaging_format"]	list of text	The formats an annotated image may be in: the image type, and the volumes the clinical pack reads (.nii, .nii.gz).