tool_list.py

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(f"Tool config file not found: {tool_conf_file}\n")
    sys.exit(1)

for line in open(tool_conf_file):
    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("{:<45}\t{:<40}\t{}".format("id", "name", tool_info["id"]))
            print(
                "- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -"
            )
        else:
            print("{:<45}\t{:<40}".format(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