Skip to main content
https://badge.fury.io/py/pfdo.svg https://travis-ci.org/FNNDSC/pfdo.svg?branch=master https://img.shields.io/badge/python-3.5%2B-blue.svg

Quick Overview

  • pfdo demonstrates how to use pftree to transverse directory trees and execute a specific analysis at each directory level (that optionally contains files of interest).

Overview

pfdo is a reference / base class application that is typically used as a component for constructing more complex behavioured functions. The application leverages the pfree callback coding contract to target a specific directory with specific files in an arbitrary file tree.

For example, imagine a nested tree of JPG image files and imagine some application that processes JPGs (rotates, increases size, etc). Using a suitably sub-classed pfdo (for example pfdo_imgconvert), a developer is able to apply some necessary processing to the files of interest irrespective of where in some input tree structure the files exist.

Moreover, the results of the processing are stored in an output directory, in an output tree, that reflects the topology of the input tree.

Installation

Dependencies

The following dependencies are installed on your host system/python3 virtual env (they will also be automatically installed if pulled from pypi):

  • pfmisc (various misc modules and classes for the pf* family of objects)

  • pftree (create a dictionary representation of a filesystem hierarchy)

Using PyPI

The best method of installing this script and all of its dependencies is by fetching it from PyPI

pip3 install pfdo

Command line arguments

-I|--inputDir <inputDir>
Input base directory to traverse.

-O|--outputDir <outputDir>
The output root directory that will contain a tree structure identical
to the input directory, and each "leaf" node will contain the analysis
results.

[-i|--inputFile <inputFile>]
An optional <inputFile> specified relative to the <inputDir>. If
specified, then do not perform a directory walk, but convert only
this file.

[-f|--fileFilter <someFilter1,someFilter2,...>]
An optional comma-delimated string to filter out files of interest
from the <inputDir> tree. Each token in the expression is applied in
turn over the space of files in a directory location, and only files
that contain this token string in their filename are preserved.

[-d|--dirFilter <someFilter1,someFilter2,...>]
Similar to the `fileFilter` but applied over the space of leaf node
in directory paths. A directory must contain at least one file
to be considered.

If a directory leaf node contains a string that corresponds to any of
the filter tokens, a special "hit" is recorded in the file hit list,
"%d-<leafnode>". For example, a directory of

                    /some/dir/in/the/inputspace/here1234

with a `dirFilter` of `1234` will create a "special" hit entry of
"%d-here1234" to tag this directory for processing.

In addition, if a directory is filtered through, all the files in
that directory will be added to the filtered file list. If no files
are to be added, passing an explicit file filter with an "empty"
single string argument, i.e. `--fileFilter " "`, is advised.

[--outputLeafDir <outputLeafDirFormat>]
If specified, will apply the <outputLeafDirFormat> to the output
directories containing data. This is useful to blanket describe
final output directories with some descriptive text, such as
'anon' or 'preview'.

This is a formatting spec, so

    --outputLeafDir 'preview-%%s'

where %%s is the original leaf directory node, will prefix each
final directory containing output with the text 'preview-' which
can be useful in describing some features of the output set.

[--test]
If specified, run the "dummy" internal callback loop triad. The test
flow simply tags files in some inputDir tree and "touches" them to a
reconstiuted tree in the output directory, prefixed with the text
"analyzed-".

[--threads <numThreads>]
If specified, break the innermost analysis loop into <numThreads>
threads.

[-x|--man]
Show full help.

[-y|--synopsis]
Show brief help.

[--json]
If specified, output a JSON dump of final return.

[--followLinks]
If specified, follow symbolic links.

-v|--verbosity <level>
Set the app verbosity level.

    0: No internal output;
    1: Run start / stop output notification;
    2: As with level '1' but with simpleProgress bar in 'pftree';
    3: As with level '2' but with list of input dirs/files in 'pftree';
    5: As with level '3' but with explicit file logging for
            - read
            - analyze
            - write

Examples

Run down a directory tree and touch all the files in the input tree that are jpgs to similar locations in the output directory:

pfdo                                                \\
    -I /var/www/html/data -f jpg                    \\
    -O /tmp/jpg --test --json                       \\
    --threads 0 --printElapsedTime

The above will find all files in the tree structure rooted at /var/www/html/data that also contain the string “jpg” anywhere in the filename. For each file found, a corresponding file will be touched in the output directory, in the same tree location as the original input. This touched file will be prefixed with the string “analyzed-“.

Finally the elapsed time and a JSON output are printed.

Download files

Download the file for your platform. If you're not sure which to choose, learn more about installing packages.

Source Distribution

pfdo-2.0.0.tar.gz (12.4 kB view details)

Uploaded Source

File details

Details for the file pfdo-2.0.0.tar.gz.

File metadata

  • Download URL: pfdo-2.0.0.tar.gz
  • Upload date:
  • Size: 12.4 kB
  • Tags: Source
  • Uploaded using Trusted Publishing? No
  • Uploaded via: twine/3.3.0 pkginfo/1.6.1 requests/2.25.1 setuptools/44.0.0 requests-toolbelt/0.9.1 tqdm/4.55.1 CPython/3.8.6

File hashes

Hashes for pfdo-2.0.0.tar.gz
Algorithm Hash digest
SHA256 87e0463a300baadba803a4da0d60ddecde7f453b60f3cfa8132c35deb5c557af
MD5 fb14b6e38143dcddb25a7d0967ac45e5
BLAKE2b-256 69d666858015b8ce6adb05ff344282d58b97eb388696671106bc82c74e5ec572

See more details on using hashes here.

Supported by

AWS Cloud computing and Security Sponsor Datadog Monitoring Depot Continuous Integration Fastly CDN Google Download Analytics Sentry Error logging StatusPage Status page