tool_list.py

from __future__ import print_function

import os
import sys

# read tool_conf.xml to get all the tool xml file names
onoff = 1
tool_list = []
tool_conf_file = os.environ.get('GALAXY_TEST_TOOL_CONF', None)

if tool_conf_file is None:
    for possible_tool_file in ['config/tool_conf.xml', 'tool_conf.xml', 'config/tool_conf.xml.sample']:
        tool_conf_file = possible_tool_file
        if os.path.isfile(possible_tool_file):
            break

if tool_conf_file is None or not os.path.isfile(tool_conf_file):
    sys.stderr.write("Tool config file not found: {}\n".format(tool_conf_file))
    sys.exit(1)

for line in open(tool_conf_file, "r"):
    if line.find("<!--") != -1:
        onoff = 0
    if line.find("file") != -1 and onoff == 1:
        strs = line.split('\"')
        tool_list.append(strs[1])
    if line.find("<section") != -1 and onoff == 1:
        keys = line.strip().split('\"')
        n = 0
        strtmp = "section::"
        while n < len(keys):
            if keys[n].find("id") != -1:
                strtmp = strtmp + keys[n + 1]
            if keys[n].find("name") != -1:
                strtmp = strtmp + keys[n + 1] + "-"
            n = n + 1
        tool_list.append(strtmp.replace(' ', '_'))
    if line.find("-->") != -1:
        onoff = 1

# read tool info from every tool xml file
name = []
id = []
desc = []
tool_infos = []
for tool in tool_list:
    if tool.find("section") != -1:
        tool_info = dict()
        tool_info["id"] = tool
        tool_infos.append(tool_info)
    if os.path.exists("tools/" + tool):
        for line in open("tools/" + tool):
            if line.find("<tool ") != -1 and line.find("id") != -1:
                keys = line.strip().split('\"')
                tool_info = dict()
                tool_info["desc"] = ''
                for n in range(len(keys) - 1):
                    if " id=" in keys[n]:
                        tool_info["id"] = keys[n + 1].replace(' ', '_')
                    if " name=" in keys[n]:
                        tool_info["name"] = keys[n + 1]
                    if " description=" in keys[n]:
                        tool_info["desc"] = keys[n + 1]
                tool_infos.append(tool_info)
                break

flag = 0
if len(sys.argv) == 1:
    for tool_info in tool_infos:
        if tool_info["id"].find("section") != -1:
            print("===========================================================================================================================================")
            print("%-45s\t%-40s\t%s" % ("id", "name", tool_info["id"]))
            print("- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -")
        else:
            print("%-45s\t%-40s" % (tool_info["id"], tool_info["name"]))
else:
    for tool_info in tool_infos:
        if tool_info["id"].find("section") != -1:
            flag = 0
        elif flag == 1:
            print(" functional.test_toolbox:TestForTool_%s" % tool_info["id"], end=' ')
        if tool_info["id"].replace('section::', '') == sys.argv[1]:
            flag = 1