veoibd_synapse.rules package¶
Module contents¶
Provide code supporting the running and automating of Snakemake rules.
-
veoibd_synapse.rules.
apply_template
(template, keywords)[source]¶ Return a list of strings of form
template
with values inkeywords
inserted.Parameters: - template (
str
) – a string containing keywords ({kw_name}
). - keywords (
dict
-like) – dict with keys of appropriate keyword names and values as equal length ORDERED lists with the correct values to be inserted.
- template (
-
veoibd_synapse.rules.
pathify_by_key_ends
(dictionary)[source]¶ Return a dict that has had all values with keys containing the suffixes: ‘_PATH’ or ‘_DIR’ converted to Path() instances.
Parameters: dictionary (dict-like) – Usually the loaded, processed config file as a dict. Returns: Modified version of the input. Return type: dict-like
-
class
veoibd_synapse.rules.
SnakeRun
(cfg, snakefile)[source]¶ Bases:
object
Initialize and manage information common to the whole run.