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authorzsloan2017-05-22 15:48:25 +0000
committerzsloan2017-05-22 15:48:25 +0000
commite6afa39ac0bf769bed181ad9e16fc4fc8e16bb22 (patch)
tree037ba4b2e1edbc0ebe11c2733f50e5f994f3a601
parentb41898f11cd20b063db1df41a34f6515f331c21b (diff)
downloadgenenetwork2-e6afa39ac0bf769bed181ad9e16fc4fc8e16bb22.tar.gz
Added print lines showing url to views.py and updated dataset menu json file
-rw-r--r--wqflask/wqflask/static/new/javascript/dataset_menu_structure.json284
-rw-r--r--wqflask/wqflask/views.py34
2 files changed, 264 insertions, 54 deletions
diff --git a/wqflask/wqflask/static/new/javascript/dataset_menu_structure.json b/wqflask/wqflask/static/new/javascript/dataset_menu_structure.json
index 861af3d6..f3712b5d 100644
--- a/wqflask/wqflask/static/new/javascript/dataset_menu_structure.json
+++ b/wqflask/wqflask/static/new/javascript/dataset_menu_structure.json
@@ -1340,14 +1340,14 @@
"GSE9588 Human Liver Normal (Mar11) Both Sexes"
],
[
- "384",
- "HLCF_0311",
- "GSE9588 Human Liver Normal (Mar11) Females"
- ],
- [
"383",
"HLCM_0311",
"GSE9588 Human Liver Normal (Mar11) Males"
+ ],
+ [
+ "384",
+ "HLCF_0311",
+ "GSE9588 Human Liver Normal (Mar11) Females"
]
],
"Phenotypes": [
@@ -1493,6 +1493,15 @@
]
]
},
+ "Islets-Gerling": {
+ "Phenotypes": [
+ [
+ "None",
+ "Islets-GerlingPublish",
+ "Islets-Gerling Published Phenotypes"
+ ]
+ ]
+ },
"TIGEM-Retina-RNA-Seq": {
"Phenotypes": [
[
@@ -1561,6 +1570,11 @@
],
"Heart mRNA": [
[
+ "820",
+ "UCLA_AXB_BXA_Aor_Jan16",
+ "UCLA AXB/BXA Aorta Affy M430 2.0 (Jan16) RMA"
+ ],
+ [
"421",
"IRCM_AXBXA_HRI0213",
"IRCM AXB/BXA Mouse Heart ILM MouseRef-8 v2.0 (Feb13) RankInv"
@@ -1568,6 +1582,11 @@
],
"Liver mRNA": [
[
+ "822",
+ "UCLA_AXB_BXA_Liv_Jan16",
+ "UCLA AXB/BXA Liver Affy M430 2.0 (Jan16) RMA"
+ ],
+ [
"352",
"GSE16780AB_UCLA_ML0911",
"GSE16780 UCLA Mouse AXB/BXA Liver Affy HT M430A (Sep11) RMA"
@@ -1727,11 +1746,6 @@
],
"Striatum mRNA": [
[
- "85",
- "SA_M2_0905_P",
- "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) PDNN"
- ],
- [
"84",
"SA_M2_0905_R",
"OHSU/VA B6D2F2 Striatum M430v2 (Sep05) RMA"
@@ -1740,22 +1754,27 @@
"83",
"SA_M2_0905_M",
"OHSU/VA B6D2F2 Striatum M430v2 (Sep05) MAS5"
+ ],
+ [
+ "85",
+ "SA_M2_0905_P",
+ "OHSU/VA B6D2F2 Striatum M430v2 (Sep05) PDNN"
]
]
},
"BHF2": {
"Adipose mRNA": [
[
- "197",
- "UCLA_BHF2_ADIPOSE_FEMALE",
- "UCLA BHF2 Adipose Female mlratio"
- ],
- [
"196",
"UCLA_BHF2_ADIPOSE_MALE",
"UCLA BHF2 Adipose Male mlratio"
],
[
+ "197",
+ "UCLA_BHF2_ADIPOSE_FEMALE",
+ "UCLA BHF2 Adipose Female mlratio"
+ ],
+ [
"165",
"UCLA_BHF2_ADIPOSE_0605",
"UCLA BHF2 Adipose (June05) mlratio"
@@ -1763,16 +1782,16 @@
],
"Brain mRNA": [
[
- "199",
- "UCLA_BHF2_BRAIN_FEMALE",
- "UCLA BHF2 Brain Female mlratio"
- ],
- [
"198",
"UCLA_BHF2_BRAIN_MALE",
"UCLA BHF2 Brain Male mlratio"
],
[
+ "199",
+ "UCLA_BHF2_BRAIN_FEMALE",
+ "UCLA BHF2 Brain Female mlratio"
+ ],
+ [
"166",
"UCLA_BHF2_BRAIN_0605",
"UCLA BHF2 Brain (June05) mlratio"
@@ -1787,16 +1806,16 @@
],
"Liver mRNA": [
[
- "201",
- "UCLA_BHF2_LIVER_FEMALE",
- "UCLA BHF2 Liver Female mlratio"
- ],
- [
"200",
"UCLA_BHF2_LIVER_MALE",
"UCLA BHF2 Liver Male mlratio"
],
[
+ "201",
+ "UCLA_BHF2_LIVER_FEMALE",
+ "UCLA BHF2 Liver Female mlratio"
+ ],
+ [
"167",
"UCLA_BHF2_LIVER_0605",
"UCLA BHF2 Liver (June05) mlratio"
@@ -2000,11 +2019,6 @@
"UTHSC Brain mRNA U74Av2 (Nov05) PDNN"
],
[
- "81",
- "BR_U_0805_P",
- "UTHSC Brain mRNA U74Av2 (Aug05) PDNN"
- ],
- [
"80",
"BR_U_0805_M",
"UTHSC Brain mRNA U74Av2 (Aug05) MAS5"
@@ -2015,6 +2029,11 @@
"UTHSC Brain mRNA U74Av2 (Aug05) RMA"
],
[
+ "81",
+ "BR_U_0805_P",
+ "UTHSC Brain mRNA U74Av2 (Aug05) PDNN"
+ ],
+ [
"42",
"CB_M_0204_P",
"INIA Brain mRNA M430 (Feb04) PDNN"
@@ -2142,6 +2161,13 @@
"BXD Genotypes"
]
],
+ "Heart mRNA": [
+ [
+ "819",
+ "UCLA_BXD_Aor_Jan16",
+ "UCLA BXD Aorta Affy M430 2.0 (Jan16) RMA"
+ ]
+ ],
"Hematopoietic Cells mRNA": [
[
"149",
@@ -2218,6 +2244,26 @@
"UMUTAffy Hippocampus Exon (Feb09) RMA"
],
[
+ "814",
+ "UTHSC_ILM_BXD_hipp_NOSb_0217",
+ "UTHSC BXD Hippocampus ILM v6.1 NOS Balanced (Feb17) RankInv"
+ ],
+ [
+ "815",
+ "UTHSC_ILM_BXD_hipp_NOEb_0217",
+ "UTHSC BXD Hippocampus ILM v6.1 NOE Balanced (Feb17) RankInv"
+ ],
+ [
+ "816",
+ "UTHSC_ILM_BXD_hipp_RSSb_0217",
+ "UTHSC BXD Hippocampus ILM v6.1 RSS Balanced (Feb17) RankInv"
+ ],
+ [
+ "817",
+ "UTHSC_ILM_BXD_hipp_RSEb_0217",
+ "UTHSC BXD Hippocampus ILM v6.1 RSE Balanced (Feb17) RankInv"
+ ],
+ [
"780",
"UTHSC_ILM_BXD_hipp_NOEb_0216",
"UTHSC BXD Hippocampus ILM v6.1 NOE Balanced (Feb16) RankInv"
@@ -2391,14 +2437,24 @@
],
"Liver Proteome": [
[
+ "540",
+ "EPFLETHZBXDprotCD0514",
+ "EPFL/ETHZ BXD Liver, Chow Diet (Jun16) Top100 SWATH"
+ ],
+ [
+ "541",
+ "EPFLETHZBXDprotHFD0514",
+ "EPFL/ETHZ BXD Liver, High Fat Diet (Jun16) Top100 SWATH"
+ ],
+ [
"704",
"EPFLETHZBXDprotCD_LS1114",
- "EPFL/ETHZ BXD Liver, Chow Diet (Oct14) Light SWATH"
+ "EPFL/ETHZ BXD Liver, Chow Diet (Oct14) Top10 SWATH"
],
[
"705",
"EPFLETHZBXDprotHF_LS1114",
- "EPFL/ETHZ BXD Liver, High Fat Diet (Oct14) Light SWATH"
+ "EPFL/ETHZ BXD Liver, High Fat Diet Diet (Oct14) Top10 SWATH"
],
[
"703",
@@ -2414,20 +2470,15 @@
"489",
"EPFLBXDprotHFDRPN0214",
"EPFL/LISP BXD Liver, Soluble Proteins HFD (Feb14) SRM"
- ],
- [
- "540",
- "EPFLETHZBXDprotCD0514",
- "EPFL/ETHZ BXD Liver, Soluble Proteins CD (Jun14) SWATH"
- ],
- [
- "541",
- "EPFLETHZBXDprotHFD0514",
- "EPFL/ETHZ BXD Liver, Soluble Proteins HFD (Jun14) SWATH"
]
],
"Liver mRNA": [
[
+ "818",
+ "UCLA_BXD_Liv_Jan16",
+ "UCLA BXD Liver Affy M430 2.0 (Jan16) RMA"
+ ],
+ [
"430",
"EPFLMouseLiverRMA0413",
"EPFL/LISP BXD CD+HFD Liver Affy Mouse Gene 1.0 ST (Apr13) RMA"
@@ -2443,6 +2494,11 @@
"EPFL/LISP BXD CD Liver Affy Mouse Gene 1.0 ST (Apr13) RMA"
],
[
+ "433",
+ "EPFLMouseLiverBothExRMA0413",
+ "EPFL/LISP BXD CD+HFD Liver Affy Mouse Gene 1.0 ST (Apr13) RMA Exon Level"
+ ],
+ [
"700",
"UTHSC-VGX_MmBXDHepatocytesRMA1014",
"UT-VGX Hepatocytes Affy Mouse Gene 1.0 ST Gene Level (Oct14) RMA"
@@ -2466,6 +2522,51 @@
"702",
"SUH_Liv_RMAEx_0611",
"SUH BXD Liver CCl4-treated Affy Mouse Gene 1.0 ST Exon Level (Jun11) RMA"
+ ],
+ [
+ "256",
+ "GenEx_BXD_liverEt_M5_0912",
+ "GenEx BXD EtOH Liver Affy M430 2.0 (Sep12) MAS5 Both Sexes"
+ ],
+ [
+ "257",
+ "GenEx_BXD_liverEt_M5M_0912",
+ "GenEx BXD EtOH Liver Affy M430 2.0 (Sep12) MAS5 Males"
+ ],
+ [
+ "258",
+ "GenEx_BXD_liverEt_M5F_0912",
+ "GenEx BXD EtOH Liver Affy M430 2.0 (Sep12) MAS5 Females"
+ ],
+ [
+ "307",
+ "GenEx_BXD_liverEt_RMA_0211",
+ "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Both Sexes"
+ ],
+ [
+ "308",
+ "GenEx_BXD_liverEt_RMA_M_0211",
+ "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Males"
+ ],
+ [
+ "309",
+ "GenEx_BXD_liverEt_RMA_F_0211",
+ "GenEx BXD EtOH Liver Affy M430 2.0 (Feb11) RMA Females"
+ ],
+ [
+ "310",
+ "GenEx_BXD_liverSal_RMA_0211",
+ "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Both Sexes"
+ ],
+ [
+ "311",
+ "GenEx_BXD_liverSal_RMA_M_0211",
+ "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Males"
+ ],
+ [
+ "312",
+ "GenEx_BXD_liverSal_RMA_F_0211",
+ "GenEx BXD Sal Liver Affy M430 2.0 (Feb11) RMA Females"
]
],
"Lung mRNA": [
@@ -2546,14 +2647,14 @@
"HQF BXD Neocortex ILM6v1.1 (Feb08) RankInv"
],
[
- "275",
- "DevNeocortex_ILM6.2P14RInv_1110",
- "BIDMC/UTHSC Dev Neocortex P14 ILMv6.2 (Nov10) RankInv"
- ],
- [
"274",
"DevNeocortex_ILM6.2P3RInv_1110",
"BIDMC/UTHSC Dev Neocortex P3 ILMv6.2 (Nov10) RankInv"
+ ],
+ [
+ "275",
+ "DevNeocortex_ILM6.2P14RInv_1110",
+ "BIDMC/UTHSC Dev Neocortex P14 ILMv6.2 (Nov10) RankInv"
]
],
"Nucleus Accumbens mRNA": [
@@ -2761,11 +2862,6 @@
],
"Ventral Tegmental Area mRNA": [
[
- "230",
- "VCUEtvsSal_0609_R",
- "VCU BXD VTA Et vs Sal M430 2.0 (Jun09) RMA"
- ],
- [
"229",
"VCUEtOH_0609_R",
"VCU BXD VTA EtOH M430 2.0 (Jun09) RMA"
@@ -2774,6 +2870,11 @@
"228",
"VCUSal_0609_R",
"VCU BXD VTA Sal M430 2.0 (Jun09) RMA"
+ ],
+ [
+ "230",
+ "VCUEtvsSal_0609_R",
+ "VCU BXD VTA Et vs Sal M430 2.0 (Jun09) RMA"
]
]
},
@@ -2920,6 +3021,27 @@
]
]
},
+ "CIE-RMA": {
+ "Midbrain mRNA": [
+ [
+ "830",
+ "INIA_UTHSC_Mid_AffyMTA1_Apr17",
+ "INIA-UTHSC Midbrain CIE Affy MTA 1.0 GeneLevel (Apr17) RMA"
+ ],
+ [
+ "834",
+ "INIA_UTHSC_Mid_AffyMTA1_Ex_May17",
+ "INIA-UTHSC Midbrain CIE Affy MTA 1.0 Exon Level (Apr17) RMA"
+ ]
+ ],
+ "Phenotypes": [
+ [
+ "None",
+ "CIE-RMAPublish",
+ "CIE-RMA Published Phenotypes"
+ ]
+ ]
+ },
"CMS": {
"Phenotypes": [
[
@@ -3021,6 +3143,13 @@
"CXB Genotypes"
]
],
+ "Heart mRNA": [
+ [
+ "821",
+ "UCLA_CXB_Aor_Jan16",
+ "UCLA CXB Aorta Affy M430 2.0 (Jan16) RMA"
+ ]
+ ],
"Hippocampus mRNA": [
[
"100",
@@ -3033,6 +3162,13 @@
"Hippocampus Consortium M430v2 CXB (Dec05) PDNN"
]
],
+ "Liver mRNA": [
+ [
+ "823",
+ "UCLA_CXB_Liv_Jan16",
+ "UCLA CXB Liver Affy M430 2.0 (Jan16) RMA"
+ ]
+ ],
"Phenotypes": [
[
"628",
@@ -3048,6 +3184,7 @@
]
]
},
+ "EMSR": {},
"HS": {
"Hippocampus mRNA": [
[
@@ -3545,6 +3682,10 @@
"Brain, Development: Normal Gene Expression (Yale/Sestan)"
],
[
+ "Islets-Gerling",
+ "Pancreatic: Islets (UTHSC/Gerling)"
+ ],
+ [
"TIGEM-Retina-RNA-Seq",
"Retina: Normal Adult Gene Expression, RNA-Seq (TIGEM)"
]
@@ -3616,7 +3757,11 @@
],
[
"CIE-INIA",
- "Chronic Intermittent Ethanol"
+ "Chronic Intermittent Ethanol Phase 1"
+ ],
+ [
+ "CIE-RMA",
+ "Chronic Intermittent Ethanol Phase 2"
],
[
"CMS",
@@ -3631,6 +3776,10 @@
"CXB"
],
[
+ "EMSR",
+ "Ethanol-Medicated Stress Reduction"
+ ],
+ [
"HS",
"Heterogeneous Stock"
],
@@ -4414,6 +4563,12 @@
"Ventrolateral Prefrontal Cortex mRNA"
]
],
+ "Islets-Gerling": [
+ [
+ "Phenotypes",
+ "Phenotypes"
+ ]
+ ],
"TIGEM-Retina-RNA-Seq": [
[
"Phenotypes",
@@ -4630,6 +4785,10 @@
"Gastrointestinal mRNA"
],
[
+ "Heart mRNA",
+ "Heart mRNA"
+ ],
+ [
"Hematopoietic Cells mRNA",
"Hematopoietic Cells mRNA"
],
@@ -4780,6 +4939,16 @@
"LCM Brain Regions mRNA"
]
],
+ "CIE-RMA": [
+ [
+ "Phenotypes",
+ "Phenotypes"
+ ],
+ [
+ "Midbrain mRNA",
+ "Midbrain mRNA"
+ ]
+ ],
"CMS": [
[
"Phenotypes",
@@ -4822,14 +4991,23 @@
"Genotypes"
],
[
+ "Heart mRNA",
+ "Heart mRNA"
+ ],
+ [
"Hippocampus mRNA",
"Hippocampus mRNA"
],
[
+ "Liver mRNA",
+ "Liver mRNA"
+ ],
+ [
"Spleen mRNA",
"Spleen mRNA"
]
],
+ "EMSR": [],
"HS": [
[
"Phenotypes",
diff --git a/wqflask/wqflask/views.py b/wqflask/wqflask/views.py
index 39f4a686..24a7cbca 100644
--- a/wqflask/wqflask/views.py
+++ b/wqflask/wqflask/views.py
@@ -71,6 +71,8 @@ import werkzeug
import utility.logger
logger = utility.logger.getLogger(__name__ )
+
+
@app.before_request
def connect_db():
db = getattr(g, '_database', None)
@@ -120,6 +122,7 @@ def handle_bad_request(e):
@app.route("/")
def index_page():
logger.info("Sending index_page")
+ logger.error(request.url)
params = request.args
if 'import_collections' in params:
import_collections = params['import_collections']
@@ -137,6 +140,7 @@ def index_page():
def tmp_page(img_path):
logger.info("In tmp_page")
logger.info("img_path:", img_path)
+ logger.error(request.url)
initial_start_vars = request.form
logger.info("initial_start_vars:", initial_start_vars)
imgfile = open(GENERATED_IMAGE_DIR + img_path, 'rb')
@@ -170,6 +174,7 @@ def bd_files(filename):
@app.route("/search", methods=('GET',))
def search_page():
logger.info("in search_page")
+ logger.error(request.url)
if 'info_database' in request.args:
logger.info("Going to sharing_info_page")
template_vars = sharing_info_page()
@@ -208,6 +213,7 @@ def search_page():
@app.route("/gsearch", methods=('GET',))
def gsearchact():
+ logger.error(request.url)
result = gsearch.GSearch(request.args).__dict__
type = request.args['type']
if type == "gene":
@@ -218,6 +224,7 @@ def gsearchact():
@app.route("/gsearch_updating", methods=('POST',))
def gsearch_updating():
logger.info("REQUEST ARGS:", request.values)
+ logger.error(request.url)
result = update_search_results.GSearch(request.args).__dict__
return result['results']
# type = request.args['type']
@@ -228,26 +235,31 @@ def gsearch_updating():
@app.route("/docedit")
def docedit():
+ logger.error(request.url)
doc = docs.Docs(request.args['entry'])
return render_template("docedit.html", **doc.__dict__)
@app.route('/generated/<filename>')
def generated_file(filename):
+ logger.error(request.url)
return send_from_directory(GENERATED_IMAGE_DIR,filename)
@app.route("/help")
def help():
+ logger.error(request.url)
doc = docs.Docs("help")
return render_template("docs.html", **doc.__dict__)
@app.route("/wgcna_setup", methods=('POST',))
def wcgna_setup():
logger.info("In wgcna, request.form is:", request.form) # We are going to get additional user input for the analysis
+ logger.error(request.url)
return render_template("wgcna_setup.html", **request.form) # Display them using the template
@app.route("/wgcna_results", methods=('POST',))
def wcgna_results():
logger.info("In wgcna, request.form is:", request.form)
+ logger.error(request.url)
wgcna = wgcna_analysis.WGCNA() # Start R, load the package and pointers and create the analysis
wgcnaA = wgcna.run_analysis(request.form) # Start the analysis, a wgcnaA object should be a separate long running thread
result = wgcna.process_results(wgcnaA) # After the analysis is finished store the result
@@ -256,11 +268,13 @@ def wcgna_results():
@app.route("/ctl_setup", methods=('POST',))
def ctl_setup():
logger.info("In ctl, request.form is:", request.form) # We are going to get additional user input for the analysis
+ logger.error(request.url)
return render_template("ctl_setup.html", **request.form) # Display them using the template
@app.route("/ctl_results", methods=('POST',))
def ctl_results():
logger.info("In ctl, request.form is:", request.form)
+ logger.error(request.url)
ctl = ctl_analysis.CTL() # Start R, load the package and pointers and create the analysis
ctlA = ctl.run_analysis(request.form) # Start the analysis, a ctlA object should be a separate long running thread
result = ctl.process_results(ctlA) # After the analysis is finished store the result
@@ -298,11 +312,13 @@ def environments():
@app.route("/submit_trait")
def submit_trait_form():
+ logger.error(request.url)
species_and_groups = get_species_groups()
return render_template("submit_trait.html", **{'species_and_groups' : species_and_groups, 'gn_server_url' : GN_SERVER_URL, 'version' : GN_VERSION})
@app.route("/create_temp_trait", methods=('POST',))
def create_temp_trait():
+ logger.error(request.url)
print("REQUEST.FORM:", request.form)
#template_vars = submit_trait.SubmitTrait(request.form)
@@ -315,6 +331,7 @@ def export_trait_excel():
"""Excel file consisting of the sample data from the trait data and analysis page"""
logger.info("In export_trait_excel")
logger.info("request.form:", request.form)
+ logger.error(request.url)
sample_data = export_trait_data.export_sample_table(request.form)
logger.info("sample_data - type: %s -- size: %s" % (type(sample_data), len(sample_data)))
@@ -340,6 +357,7 @@ def export_trait_csv():
"""CSV file consisting of the sample data from the trait data and analysis page"""
logger.info("In export_trait_csv")
logger.info("request.form:", request.form)
+ logger.error(request.url)
sample_data = export_trait_data.export_sample_table(request.form)
logger.info("sample_data - type: %s -- size: %s" % (type(sample_data), len(sample_data)))
@@ -360,6 +378,7 @@ def export_traits_csv():
"""CSV file consisting of the traits from the search result page"""
logger.info("In export_traits_csv")
logger.info("request.form:", request.form)
+ logger.error(request.url)
csv_data = export_traits.export_search_results_csv(request.form)
return Response(csv_data,
@@ -369,6 +388,7 @@ def export_traits_csv():
@app.route('/export_perm_data', methods=('POST',))
def export_perm_data():
"""CSV file consisting of the permutation data for the mapping results"""
+ logger.error(request.url)
num_perm = float(request.form['num_perm'])
perm_data = json.loads(request.form['perm_results'])
@@ -391,6 +411,7 @@ def export_perm_data():
@app.route("/show_temp_trait", methods=('POST',))
def show_temp_trait_page():
+ logger.error(request.url)
template_vars = show_trait.ShowTrait(request.form)
#logger.info("js_data before dump:", template_vars.js_data)
template_vars.js_data = json.dumps(template_vars.js_data,
@@ -405,6 +426,7 @@ def show_temp_trait_page():
@app.route("/show_trait")
def show_trait_page():
+ logger.error(request.url)
template_vars = show_trait.ShowTrait(request.args)
#logger.info("js_data before dump:", template_vars.js_data)
template_vars.js_data = json.dumps(template_vars.js_data,
@@ -420,6 +442,7 @@ def show_trait_page():
@app.route("/heatmap", methods=('POST',))
def heatmap_page():
logger.info("In heatmap, request.form is:", pf(request.form))
+ logger.error(request.url)
start_vars = request.form
temp_uuid = uuid.uuid4()
@@ -469,6 +492,7 @@ def mapping_results_container_page():
@app.route("/loading", methods=('POST',))
def loading_page():
+ logger.error(request.url)
initial_start_vars = request.form
logger.debug("Marker regression called with initial_start_vars:", initial_start_vars.items())
#temp_uuid = initial_start_vars['temp_uuid']
@@ -525,6 +549,7 @@ def loading_page():
def marker_regression_page():
initial_start_vars = request.form
logger.debug("Marker regression called with initial_start_vars:", initial_start_vars.items())
+ logger.error(request.url)
temp_uuid = initial_start_vars['temp_uuid']
wanted = (
'trait_id',
@@ -646,6 +671,7 @@ def marker_regression_page():
@app.route("/export", methods = ('POST',))
def export():
logger.info("request.form:", request.form)
+ logger.error(request.url)
svg_xml = request.form.get("data", "Invalid data")
filename = request.form.get("filename", "manhattan_plot_snp")
response = Response(svg_xml, mimetype="image/svg+xml")
@@ -656,6 +682,7 @@ def export():
def export_pdf():
import cairosvg
logger.info("request.form:", request.form)
+ logger.error(request.url)
svg_xml = request.form.get("data", "Invalid data")
logger.info("svg_xml:", svg_xml)
filename = request.form.get("filename", "interval_map_pdf")
@@ -668,7 +695,7 @@ def export_pdf():
@app.route("/network_graph", methods=('POST',))
def network_graph_page():
logger.info("In network_graph, request.form is:", pf(request.form))
-
+ logger.error(request.url)
start_vars = request.form
traits = [trait.strip() for trait in start_vars['trait_list'].split(',')]
if traits[0] != "":
@@ -684,6 +711,7 @@ def network_graph_page():
@app.route("/corr_compute", methods=('POST',))
def corr_compute_page():
logger.info("In corr_compute, request.form is:", pf(request.form))
+ logger.error(request.url)
#fd = webqtlFormData.webqtlFormData(request.form)
template_vars = show_corr_results.CorrelationResults(request.form)
return render_template("correlation_page.html", **template_vars.__dict__)
@@ -691,6 +719,7 @@ def corr_compute_page():
@app.route("/corr_matrix", methods=('POST',))
def corr_matrix_page():
logger.info("In corr_matrix, request.form is:", pf(request.form))
+ logger.error(request.url)
start_vars = request.form
traits = [trait.strip() for trait in start_vars['trait_list'].split(',')]
@@ -706,6 +735,7 @@ def corr_matrix_page():
@app.route("/corr_scatter_plot")
def corr_scatter_plot_page():
+ logger.error(request.url)
template_vars = corr_scatter_plot.CorrScatterPlot(request.args)
template_vars.js_data = json.dumps(template_vars.js_data,
default=json_default_handler,
@@ -717,6 +747,7 @@ def corr_scatter_plot_page():
def sharing_info_page():
"""Info page displayed when the user clicks the "Info" button next to the dataset selection"""
logger.info("In sharing_info_page")
+ logger.error(request.url)
fd = webqtlFormData.webqtlFormData(request.args)
template_vars = SharingInfoPage.SharingInfoPage(fd)
return template_vars
@@ -724,6 +755,7 @@ def sharing_info_page():
# Take this out or secure it before putting into production
@app.route("/get_temp_data")
def get_temp_data():
+ logger.error(request.url)
temp_uuid = request.args['key']
return flask.jsonify(temp_data.TempData(temp_uuid).get_all())