Mercurial > repos > bgruening > cp_measure_texture
view cp_common_functions.py @ 4:035a58c7f54a draft
"planemo upload for repository https://github.com/bgruening/galaxytools/tree/master/tools commit 35da2dcd86747c9bff138e100dbe08c6106f3780"
author | bgruening |
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date | Sat, 06 Feb 2021 09:59:30 +0000 |
parents | 8f3f8c94626f |
children | b76841ee5560 |
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INDENTATION = " " LINE_NUM_MODULES = 4 def get_json_value(json_input, keys_path): """Returns the value specified in keys_path (using dot notation) or an empty string if the key doesn't exist""" if not isinstance(json_input, dict): return "" keys = keys_path.split(".") try: value = json_input[keys[0]] for key in keys[1:]: value = value[key] return value except KeyError: return "" def concat_conditional(a, b): if a == "" or b == "": return "" else: return f"{a}_{b}" def get_total_number_of_modules(pipeline_lines): """Gets the number of modules from the header of the previous pipeline""" number_of_modules = pipeline_lines[LINE_NUM_MODULES].strip().split(':')[1] return int(number_of_modules) def get_pipeline_lines(input_pipeline): """Returns a list with the lines in the .cppipe file""" with open(input_pipeline) as f: lines = f.readlines() return lines def update_module_count(pipeline_lines, count): """Updates the number of modules in the .cppipe header""" module_count_entry = pipeline_lines[LINE_NUM_MODULES].strip().split(':')[0] pipeline_lines[4] = f"{module_count_entry}:{count}\n" return pipeline_lines def write_pipeline(filename, lines_pipeline): """Writes the lines composing the pipeline into a file""" with open(filename, "w") as f: f.writelines(lines_pipeline) def build_header(module_name, module_number): """Creates the first line of a module given the name and module number""" result = "|".join([f"{module_name}:[module_num:{module_number}", "svn_version:\\'Unknown\\'", "variable_revision_number:4", "show_window:False", "notes:\\x5B\\x5D", "batch_state:array(\\x5B\\x5D, dtype=uint8)", "enabled:True", "wants_pause:False]\n"]) return result