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.. include:: ../../global.inc
.. include:: manual_chapter_numbers.inc
.. _new_manual.mkdir.code:
############################################################################################################################################################################################################
|new_manual.mkdir.chapter_num|: Python Code for Preparing directories for output with :ref:`@mkdir() <decorators.mkdir>`
############################################################################################################################################################################################################
.. seealso::
* :ref:`Manual Table of Contents <new_manual.table_of_contents>`
* :ref:`mkdir() <decorators.mkdir>` syntax
* :ref:`formatter() <decorators.formatter>` syntax
* :ref:`regex() <decorators.regex>` syntax
* Back to |new_manual.mkdir.chapter_num|: :ref:`Preparing directories for output with @mkdir() <new_manual.mkdir>`
****************************************************************************************************************
Code for :ref:`formatter() <decorators.formatter>` Zoo example
****************************************************************************************************************
.. code-block:: python
from ruffus import *
# Make directories
@mkdir(["tiger", "lion", "dog", "crocodile", "rose"])
@originate(
# List of animals and plants
[ "tiger/mammals.wild.animals",
"lion/mammals.wild.animals",
"lion/mammals.handreared.animals",
"dog/mammals.tame.animals",
"dog/mammals.wild.animals",
"crocodile/reptiles.wild.animals",
"rose/flowering.handreared.plants"])
def create_initial_files(output_file):
with open(output_file, "w") as oo: pass
# create directories for each clade
@mkdir( create_initial_files, # Input
formatter(".+/(?P<clade>\w+).(?P<tame>\w+).animals"), # Only animals: ignore plants!
"{subpath[0][1]}/{clade[0]}") # new_directory
# Put different animals in different directories depending on their clade
@transform(create_initial_files, # Input
formatter(".+/(?P<clade>\w+).(?P<tame>\w+).animals"), # Only animals: ignore plants!
"{subpath[0][1]}/{clade[0]}/{tame[0]}.{subdir[0][0]}.food", # Replacement
"{subpath[0][1]}/{clade[0]}", # new_directory
"{subdir[0][0]}", # animal_name
"{tame[0]}") # tameness
def feed(input_file, output_file, new_directory, animal_name, tameness):
print "%40s -> %90s" % (input_file, output_file)
# this works now
open(output_file, "w")
pipeline_run(verbose=0)
****************************************************************************************************************
Code for :ref:`regex() <decorators.regex>` Zoo example
****************************************************************************************************************
.. code-block:: python
from ruffus import *
# Make directories
@mkdir(["tiger", "lion", "dog", "crocodile", "rose"])
@originate(
# List of animals and plants
[ "tiger/mammals.wild.animals",
"lion/mammals.wild.animals",
"lion/mammals.handreared.animals",
"dog/mammals.tame.animals",
"dog/mammals.wild.animals",
"crocodile/reptiles.wild.animals",
"rose/flowering.handreared.plants"])
def create_initial_files(output_file):
with open(output_file, "w") as oo: pass
# create directories for each clade
@mkdir( create_initial_files, # Input
regex(r"(.*?/?)(\w+)/(?P<clade>\w+).(?P<tame>\w+).animals"), # Only animals: ignore plants!
r"\g<clade>") # new_directory
# Put different animals in different directories depending on their clade
@transform(create_initial_files, # Input
regex(r"(.*?/?)(\w+)/(?P<clade>\w+).(?P<tame>\w+).animals"), # Only animals: ignore plants!
r"\1\g<clade>/\g<tame>.\2.food", # Replacement
r"\1\g<clade>", # new_directory
r"\2", # animal_name
"\g<tame>") # tameness
def feed(input_file, output_file, new_directory, animal_name, tameness):
print "%40s -> %90s" % (input_file, output_file)
# this works now
open(output_file, "w")
pipeline_run(verbose=0)
|
