From d74fab1e7fc5fd3c7646f594714b6a34e4b7a31f Mon Sep 17 00:00:00 2001 From: Pjotr Prins Date: Wed, 5 Oct 2016 08:03:57 +0000 Subject: Tests: Mapping tests pass now --- .../input/mapping/1435395_s_at_HC_M2_0606_P.json | 383 +++++++++++++-------- test/lib/mapping.rb | 6 +- 2 files changed, 246 insertions(+), 143 deletions(-) (limited to 'test') diff --git a/test/data/input/mapping/1435395_s_at_HC_M2_0606_P.json b/test/data/input/mapping/1435395_s_at_HC_M2_0606_P.json index 15428553..195c16e4 100644 --- a/test/data/input/mapping/1435395_s_at_HC_M2_0606_P.json +++ b/test/data/input/mapping/1435395_s_at_HC_M2_0606_P.json @@ -1,142 +1,245 @@ { "temp_uuid" : "unknown", -"maf" : "0.01", -"control_marker" : "mCV24506226", -"dataset" : "HC_M2_0606_P", - "do_control" : "false", - "maf" : "0.01", - "manhattan_plot" : "False", - "mapmethod_rqtl_geno" : "em", - "mapmodel_rqtl_geno" : "normal", - "method" : "rqtl_geno", - "num_bootstrap" : "2000", - "num_perm" : "", - "pair_scan" : "false", - "suggestive" : "0", - "trait_id" : "1433387_at", - "value:129S1/SvImJ" : "6.920", - "value:A/J" : "7.437", - "value:AKR/J" : "7.550", - "value:B6D2F1" : "7.742", - "value:BALB/cByJ" : "6.613", - "value:BALB/cJ" : "6.664", - "value:BXD1" : "6.749", - "value:BXD100" : "x", - "value:BXD101" : "x", - "value:BXD102" : "x", - "value:BXD103" : "x", - "value:BXD11" : "7.398", - "value:BXD12" : "7.073", - "value:BXD13" : "8.191", - "value:BXD14" : "x", - "value:BXD15" : "7.406", - "value:BXD16" : "6.890", - "value:BXD18" : "x", - "value:BXD19" : "6.980", - "value:BXD2" : "7.248", - "value:BXD20" : "7.554", - "value:BXD21" : "7.316", - "value:BXD22" : "7.327", - "value:BXD23" : "7.605", - "value:BXD24" : "7.306", - "value:BXD24a" : "x", - "value:BXD25" : "x", - "value:BXD27" : "7.800", - "value:BXD28" : "7.023", - "value:BXD29" : "7.518", - "value:BXD30" : "x", - "value:BXD31" : "7.301", - "value:BXD32" : "7.161", - "value:BXD33" : "7.140", - "value:BXD34" : "8.180", - "value:BXD35" : "x", - "value:BXD36" : "x", - "value:BXD37" : "x", - "value:BXD38" : "7.350", - "value:BXD39" : "6.976", - "value:BXD40" : "7.411", - "value:BXD41" : "x", - "value:BXD42" : "7.050", - "value:BXD43" : "6.866", - "value:BXD44" : "7.246", - "value:BXD45" : "7.576", - "value:BXD48" : "7.108", - "value:BXD48a" : "7.192", - "value:BXD49" : "x", - "value:BXD5" : "6.771", - "value:BXD50" : "7.528", - "value:BXD51" : "7.408", - "value:BXD52" : "x", - "value:BXD53" : "x", - "value:BXD54" : "x", - "value:BXD55" : "6.720", - "value:BXD56" : "x", - "value:BXD59" : "x", - "value:BXD6" : "7.372", - "value:BXD60" : "7.178", - "value:BXD61" : "7.198", - "value:BXD62" : "7.618", - "value:BXD63" : "7.076", - "value:BXD64" : "6.576", - "value:BXD65" : "7.046", - "value:BXD65a" : "7.046", - "value:BXD65b" : "7.385", - "value:BXD66" : "7.108", - "value:BXD67" : "7.342", - "value:BXD68" : "7.668", - "value:BXD69" : "7.310", - "value:BXD70" : "7.278", - "value:BXD71" : "x", - "value:BXD72" : "x", - "value:BXD73" : "7.342", - "value:BXD73a" : "7.841", - "value:BXD74" : "7.298", - "value:BXD75" : "7.133", - "value:BXD76" : "7.448", - "value:BXD77" : "7.014", - "value:BXD78" : "x", - "value:BXD79" : "7.916", - "value:BXD8" : "7.148", - "value:BXD81" : "x", - "value:BXD83" : "7.322", - "value:BXD84" : "7.298", - "value:BXD85" : "7.243", - "value:BXD86" : "7.719", - "value:BXD87" : "7.145", - "value:BXD88" : "x", - "value:BXD89" : "7.162", - "value:BXD9" : "6.708", - "value:BXD90" : "7.497", - "value:BXD91" : "x", - "value:BXD93" : "7.558", - "value:BXD94" : "6.817", - "value:BXD95" : "x", - "value:BXD98" : "7.753", - "value:BXD99" : "8.076", - "value:C3H/HeJ" : "7.536", - "value:C57BL/6ByJ" : "6.940", - "value:C57BL/6J" : "7.309", - "value:CAST/EiJ" : "8.796", - "value:CXB1" : "6.430", - "value:CXB10" : "6.958", - "value:CXB11" : "6.182", - "value:CXB12" : "6.432", - "value:CXB13" : "6.388", - "value:CXB2" : "7.687", - "value:CXB3" : "6.312", - "value:CXB4" : "6.453", - "value:CXB5" : "6.959", - "value:CXB6" : "7.022", - "value:CXB7" : "6.334", - "value:CXB8" : "6.790", - "value:CXB9" : "6.545", - "value:D2B6F1" : "7.615", - "value:DBA/2J" : "7.816", - "value:KK/HlJ" : "8.035", - "value:LG/J" : "7.594", - "value:NOD/ShiLtJ" : "8.220", - "value:NZO/HlLtJ" : "7.629", - "value:PWD/PhJ" : "6.320", - "value:PWK/PhJ" : "7.235", - "value:WSB/EiJ" : "7.650" -} + "control_marker": "NES13033186", + "dataset": "HC_M2_0606_P", + "do_control": "false", + "maf": "0.01", + "manhattan_plot": "False", + "mapmethod_rqtl_geno": "em", + "mapmodel_rqtl_geno": "normal", + "method": "rqtl_geno", + "num_bootstrap": "2000", + "num_perm": "", + "pair_scan": "false", + "suggestive": "0", + "trait_id": "1435395_s_at", + "value:129S1/SvImJ": "15.468", + "value:A/J": "15.230", + "value:AKR/J": "15.798", + "value:B6D2F1": "15.575", + "value:BALB/cByJ": "15.138", + "value:BALB/cJ": "15.222", + "value:BXD1": "15.034", + "value:BXD100": "x", + "value:BXD101": "x", + "value:BXD102": "x", + "value:BXD104": "x", + "value:BXD105": "x", + "value:BXD106": "x", + "value:BXD107": "x", + "value:BXD108": "x", + "value:BXD109": "x", + "value:BXD11": "15.364", + "value:BXD110": "x", + "value:BXD111": "x", + "value:BXD112": "x", + "value:BXD113": "x", + "value:BXD114": "x", + "value:BXD115": "x", + "value:BXD116": "x", + "value:BXD117": "x", + "value:BXD119": "x", + "value:BXD12": "14.992", + "value:BXD120": "x", + "value:BXD121": "x", + "value:BXD122": "x", + "value:BXD123": "x", + "value:BXD124": "x", + "value:BXD125": "x", + "value:BXD126": "x", + "value:BXD127": "x", + "value:BXD128": "x", + "value:BXD128a": "x", + "value:BXD13": "15.290", + "value:BXD130": "x", + "value:BXD131": "x", + "value:BXD132": "x", + "value:BXD133": "x", + "value:BXD134": "x", + "value:BXD135": "x", + "value:BXD136": "x", + "value:BXD137": "x", + "value:BXD138": "x", + "value:BXD139": "x", + "value:BXD14": "x", + "value:BXD141": "x", + "value:BXD142": "x", + "value:BXD144": "x", + "value:BXD145": "x", + "value:BXD146": "x", + "value:BXD147": "x", + "value:BXD148": "x", + "value:BXD149": "x", + "value:BXD15": "15.188", + "value:BXD150": "x", + "value:BXD151": "x", + "value:BXD152": "x", + "value:BXD153": "x", + "value:BXD154": "x", + "value:BXD155": "x", + "value:BXD156": "x", + "value:BXD157": "x", + "value:BXD16": "15.340", + "value:BXD160": "x", + "value:BXD161": "x", + "value:BXD162": "x", + "value:BXD165": "x", + "value:BXD168": "x", + "value:BXD169": "x", + "value:BXD170": "x", + "value:BXD171": "x", + "value:BXD172": "x", + "value:BXD173": "x", + "value:BXD174": "x", + "value:BXD175": "x", + "value:BXD176": "x", + "value:BXD177": "x", + "value:BXD178": "x", + "value:BXD18": "x", + "value:BXD180": "x", + "value:BXD181": "x", + "value:BXD183": "x", + "value:BXD184": "x", + "value:BXD186": "x", + "value:BXD187": "x", + "value:BXD188": "x", + "value:BXD189": "x", + "value:BXD19": "15.144", + "value:BXD190": "x", + "value:BXD191": "x", + "value:BXD192": "x", + "value:BXD193": "x", + "value:BXD194": "x", + "value:BXD195": "x", + "value:BXD196": "x", + "value:BXD197": "x", + "value:BXD198": "x", + "value:BXD199": "x", + "value:BXD2": "15.538", + "value:BXD20": "15.194", + "value:BXD200": "x", + "value:BXD201": "x", + "value:BXD202": "x", + "value:BXD203": "x", + "value:BXD204": "x", + "value:BXD205": "x", + "value:BXD206": "x", + "value:BXD207": "x", + "value:BXD208": "x", + "value:BXD209": "x", + "value:BXD21": "15.088", + "value:BXD210": "x", + "value:BXD211": "x", + "value:BXD212": "x", + "value:BXD213": "x", + "value:BXD214": "x", + "value:BXD215": "x", + "value:BXD216": "x", + "value:BXD217": "x", + "value:BXD218": "x", + "value:BXD219": "x", + "value:BXD22": "15.499", + "value:BXD220": "x", + "value:BXD23": "14.988", + "value:BXD24": "15.562", + "value:BXD24a": "x", + "value:BXD25": "x", + "value:BXD27": "15.598", + "value:BXD28": "15.510", + "value:BXD29": "15.041", + "value:BXD30": "x", + "value:BXD31": "14.834", + "value:BXD32": "15.245", + "value:BXD33": "15.466", + "value:BXD34": "15.302", + "value:BXD35": "x", + "value:BXD36": "x", + "value:BXD37": "x", + "value:BXD38": "15.131", + "value:BXD39": "15.430", + "value:BXD40": "15.488", + "value:BXD41": "x", + "value:BXD42": "14.878", + "value:BXD43": "15.542", + "value:BXD44": "15.417", + "value:BXD45": "14.910", + "value:BXD48": "15.487", + "value:BXD48a": "15.328", + "value:BXD49": "x", + "value:BXD5": "15.622", + "value:BXD50": "15.435", + "value:BXD51": "15.183", + "value:BXD52": "x", + "value:BXD53": "x", + "value:BXD54": "x", + "value:BXD55": "14.928", + "value:BXD56": "x", + "value:BXD59": "x", + "value:BXD6": "15.366", + "value:BXD60": "15.502", + "value:BXD61": "15.622", + "value:BXD62": "15.198", + "value:BXD63": "15.238", + "value:BXD64": "15.572", + "value:BXD65": "15.485", + "value:BXD65a": "15.284", + "value:BXD65b": "15.318", + "value:BXD66": "15.406", + "value:BXD67": "15.509", + "value:BXD68": "15.552", + "value:BXD69": "15.667", + "value:BXD70": "15.104", + "value:BXD71": "x", + "value:BXD72": "x", + "value:BXD73": "15.210", + "value:BXD73a": "15.223", + "value:BXD73b": "x", + "value:BXD74": "15.666", + "value:BXD75": "15.554", + "value:BXD76": "15.234", + "value:BXD77": "15.613", + "value:BXD78": "x", + "value:BXD79": "15.124", + "value:BXD8": "15.548", + "value:BXD81": "x", + "value:BXD83": "15.512", + "value:BXD84": "15.426", + "value:BXD85": "15.252", + "value:BXD86": "15.457", + "value:BXD87": "15.320", + "value:BXD88": "x", + "value:BXD89": "15.316", + "value:BXD9": "15.669", + "value:BXD90": "15.348", + "value:BXD91": "x", + "value:BXD93": "15.602", + "value:BXD94": "15.360", + "value:BXD95": "x", + "value:BXD98": "15.421", + "value:BXD99": "15.534", + "value:C3H/HeJ": "15.398", + "value:C57BL/6ByJ": "15.702", + "value:C57BL/6J": "15.281", + "value:CAST/EiJ": "15.890", + "value:CXB1": "15.774", + "value:CXB10": "15.518", + "value:CXB11": "15.922", + "value:CXB12": "15.753", + "value:CXB13": "15.608", + "value:CXB2": "15.320", + "value:CXB3": "15.492", + "value:CXB4": "15.541", + "value:CXB5": "15.353", + "value:CXB6": "15.454", + "value:CXB7": "15.547", + "value:CXB8": "15.496", + "value:CXB9": "15.880", + "value:D2B6F1": "15.265", + "value:DBA/2J": "15.287", + "value:KK/HlJ": "15.303", + "value:LG/J": "15.285", + "value:NOD/ShiLtJ": "15.348", + "value:NZO/HlLtJ": "15.028", + "value:PWD/PhJ": "15.535", + "value:PWK/PhJ": "15.382", + "value:WSB/EiJ": "15.424"} diff --git a/test/lib/mapping.rb b/test/lib/mapping.rb index 4c8ff632..d6a3cd7b 100644 --- a/test/lib/mapping.rb +++ b/test/lib/mapping.rb @@ -19,7 +19,7 @@ describe MappingTest do json["method"] = "pylmm" # p json page = @agent.post(URI.encode(url), json) - # Unpacking the page is slow - but the run is enough as a test + # Unpacking the page is slow - somehow - but the run is enough as a test # form = page.forms_with("marker_regression")[0] # form.fields.select { |fld| fld.name == 'dataset' }.first.value.must_equal 'HC_M2_0606_P' # form.fields.select { |fld| fld.name == 'value:BXD1' }.first.value.must_equal '6.749' @@ -37,7 +37,7 @@ describe MappingTest do ({'Content-Type' => 'application/x-www-form-urlencoded'})) form = page.forms_with("marker_regression")[0] form.fields.select { |fld| fld.name == 'dataset' }.first.value.must_equal 'HC_M2_0606_P' - form.fields.select { |fld| fld.name == 'value:BXD1' }.first.value.must_equal '6.749' + form.fields.select { |fld| fld.name == 'value:BXD1' }.first.value.must_equal "15.034" end end @@ -50,7 +50,7 @@ describe MappingTest do page = @agent.post(URI.encode(url), json) form = page.forms_with("marker_regression")[0] form.fields.select { |fld| fld.name == 'dataset' }.first.value.must_equal 'HC_M2_0606_P' - form.fields.select { |fld| fld.name == 'value:BXD1' }.first.value.must_equal '6.749' + form.fields.select { |fld| fld.name == 'value:BXD1' }.first.value.must_equal "15.034" end end -- cgit v1.2.3