import re import copy import json import requests from lxml.html import fromstring def load_data_from_file(): filename = "../test/data/input/mapping/1435395_s_at_HC_M2_0606_P.json" file_handle = open(filename, "r") file_data = json.loads(file_handle.read().encode("utf-8")) return file_data def check_R_qtl_tool_selection(host, data): print("") print("R/qtl mapping tool selection") headers = {"Content-Type": "application/x-www-form-urlencoded"} page = requests.post(host+"/loading", data=data, headers=headers) doc = fromstring(page.text) form = doc.forms[0] assert form.fields["dataset"] == "HC_M2_0606_P" assert form.fields["value:BXD1"] == "15.034" def check_CIM_tool_selection(host, data): print("") print("CIM mapping tool selection (using reaper)") data["method"] = "reaper" page = requests.post(host+"/loading", data=data) doc = fromstring(page.text) form = doc.forms[0] assert form.fields["dataset"] == "HC_M2_0606_P" assert form.fields["value:BXD1"] == "15.034" def check_mapping(args_obj, parser): print("") print("Checking mapping") host = args_obj.host data = load_data_from_file() # check_pylmm_tool_selection(host, copy.deepcopy(data)) ## Not defined check_R_qtl_tool_selection(host, copy.deepcopy(data)) check_CIM_tool_selection(host, copy.deepcopy(data))