--- /dev/null	Thu Jan 01 00:00:00 1970 +0000
+++ b/test-data/test_out/rank_pathways/rank_pathways.tabular	Wed Sep 12 17:10:26 2012 -0400
@@ -0,0 +1,240 @@
+3	0.25	1	cfa03450=Non-homologous end-joining
+1	0.25	1	cfa00750=Vitamin B6 metabolism
+2	0.2	3	cfa00290=Valine, leucine and isoleucine biosynthesis
+3	0.18	4	cfa00770=Pantothenate and CoA biosynthesis
+5	0.17	5	cfa05310=Asthma
+4	0.16	6	cfa00760=Nicotinate and nicotinamide metabolism
+2	0.12	7	cfa00450=Selenocompound metabolism
+4	0.11	8	cfa05330=Allograft rejection
+5	0.098	9	cfa04672=Intestinal immune network for IgA production
+4	0.098	9	cfa02010=ABC transporters
+2	0.095	11	cfa03430=Mismatch repair
+4	0.089	12	cfa05320=Autoimmune thyroid disease
+4	0.089	12	cfa00280=Valine, leucine and isoleucine degradation
+3	0.088	14	cfa03410=Base excision repair
+3	0.088	14	cfa03030=DNA replication
+3	0.088	14	cfa00565=Ether lipid metabolism
+6	0.087	17	cfa05140=Leishmaniasis
+2	0.087	17	cfa04977=Vitamin digestion and absorption
+1	0.083	19	cfa00740=Riboflavin metabolism
+4	0.08	20	cfa05150=Staphylococcus aureus infection
+2	0.08	20	cfa03060=Protein export
+3	0.079	22	cfa05340=Primary immunodeficiency
+3	0.079	22	cfa05143=African trypanosomiasis
+6	0.078	24	cfa00564=Glycerophospholipid metabolism
+2	0.077	25	cfa00410=beta-Alanine metabolism
+2	0.071	26	cfa05332=Graft-versus-host disease
+5	0.069	27	cfa03320=PPAR signaling pathway
+6	0.066	28	cfa05323=Rheumatoid arthritis
+5	0.063	29	cfa04664=Fc epsilon RI signaling pathway
+3	0.062	30	cfa00561=Glycerolipid metabolism
+2	0.062	30	cfa00350=Tyrosine metabolism
+2	0.062	30	cfa00020=Citrate cycle (TCA cycle)
+2	0.059	33	cfa00260=Glycine, serine and threonine metabolism
+1	0.059	33	cfa04614=Renin-angiotensin system
+1	0.059	33	cfa00360=Phenylalanine metabolism
+9	0.058	36	cfa04145=Phagosome
+3	0.058	36	cfa05213=Endometrial cancer
+4	0.057	38	cfa05416=Viral myocarditis
+2	0.057	38	cfa00500=Starch and sucrose metabolism
+2	0.056	40	cfa04130=SNARE interactions in vesicular transport
+1	0.056	40	cfa00592=alpha-Linolenic acid metabolism
+1	0.053	42	cfa04964=Proximal tubule bicarbonate reclamation
+1	0.053	42	cfa00630=Glyoxylate and dicarboxylate metabolism
+3	0.052	44	cfa04621=NOD-like receptor signaling pathway
+2	0.05	45	cfa05219=Bladder cancer
+2	0.05	45	cfa04940=Type I diabetes mellitus
+2	0.05	45	cfa00380=Tryptophan metabolism
+2	0.047	48	cfa03420=Nucleotide excision repair
+3	0.045	49	cfa04920=Adipocytokine signaling pathway
+3	0.045	49	cfa00970=Aminoacyl-tRNA biosynthesis
+2	0.045	49	cfa00071=Fatty acid metabolism
+1	0.045	49	cfa00591=Linoleic acid metabolism
+1	0.045	49	cfa00340=Histidine metabolism
+4	0.043	54	cfa04972=Pancreatic secretion
+2	0.043	54	cfa03022=Basal transcription factors
+2	0.043	54	cfa00982=Drug metabolism - cytochrome P450
+3	0.042	57	cfa05218=Melanoma
+3	0.042	57	cfa05211=Renal cell carcinoma
+4	0.041	59	cfa05414=Dilated cardiomyopathy
+2	0.04	60	cfa00590=Arachidonic acid metabolism
+1	0.04	60	cfa04320=Dorso-ventral axis formation
+3	0.039	62	cfa04662=B cell receptor signaling pathway
+2	0.039	62	cfa00310=Lysine degradation
+3	0.038	64	cfa04512=ECM-receptor interaction
+2	0.038	64	cfa05144=Malaria
+2	0.038	64	cfa00270=Cysteine and methionine metabolism
+1	0.038	64	cfa03440=Homologous recombination
+1	0.038	64	cfa00052=Galactose metabolism
+8	0.037	69	cfa04810=Regulation of actin cytoskeleton
+4	0.037	69	cfa05146=Amoebiasis
+4	0.037	69	cfa04666=Fc gamma R-mediated phagocytosis
+2	0.037	69	cfa05223=Non-small cell lung cancer
+6	0.036	73	cfa05168=Herpes simplex infection
+6	0.036	73	cfa05152=Tuberculosis
+3	0.036	73	cfa04640=Hematopoietic cell lineage
+7	0.034	76	cfa04510=Focal adhesion
+3	0.034	76	cfa00240=Pyrimidine metabolism
+3	0.033	78	cfa03008=Ribosome biogenesis in eukaryotes
+1	0.033	78	cfa00983=Drug metabolism - other enzymes
+2	0.032	80	cfa04976=Bile secretion
+6	0.031	81	cfa04060=Cytokine-cytokine receptor interaction
+4	0.031	81	cfa04110=Cell cycle
+1	0.031	81	cfa00250=Alanine, aspartate and glutamate metabolism
+4	0.029	84	cfa05145=Toxoplasmosis
+3	0.029	84	cfa04650=Natural killer cell mediated cytotoxicity
+2	0.029	84	cfa05214=Glioma
+4	0.028	87	cfa05162=Measles
+2	0.028	87	cfa05412=Arrhythmogenic right ventricular cardiomyopathy (ARVC)
+7	0.027	89	cfa05166=HTLV-I infection
+4	0.027	89	cfa05322=Systemic lupus erythematosus
+2	0.027	89	cfa05212=Pancreatic cancer
+2	0.026	92	cfa04146=Peroxisome
+2	0.026	92	cfa04070=Phosphatidylinositol signaling system
+1	0.026	92	cfa04978=Mineral absorption
+2	0.025	95	cfa05133=Pertussis
+2	0.025	95	cfa04612=Antigen processing and presentation
+2	0.025	95	cfa04350=TGF-beta signaling pathway
+1	0.025	95	cfa00830=Retinol metabolism
+3	0.024	99	cfa04514=Cell adhesion molecules (CAMs)
+2	0.024	99	cfa05410=Hypertrophic cardiomyopathy (HCM)
+2	0.024	99	cfa04012=ErbB signaling pathway
+1	0.024	99	cfa00980=Metabolism of xenobiotics by cytochrome P450
+1	0.024	99	cfa00640=Propanoate metabolism
+3	0.023	104	cfa04360=Axon guidance
+2	0.023	104	cfa04620=Toll-like receptor signaling pathway
+1	0.023	104	cfa04975=Fat digestion and absorption
+1	0.023	104	cfa04330=Notch signaling pathway
+7	0.022	108	cfa05200=Pathways in cancer
+3	0.022	108	cfa04910=Insulin signaling pathway
+2	0.022	108	cfa05215=Prostate cancer
+1	0.022	108	cfa03460=Fanconi anemia pathway
+24	0.021	112	cfa01100=Metabolic pathways
+3	0.021	112	cfa04630=Jak-STAT signaling pathway
+1	0.021	112	cfa00480=Glutathione metabolism
+3	0.020	115	cfa00230=Purine metabolism
+2	0.020	115	cfa04540=Gap junction
+1	0.02	115	cfa00620=Pyruvate metabolism
+2	0.019	118	cfa04912=GnRH signaling pathway
+2	0.018	119	cfa05142=Chagas disease (American trypanosomiasis)
+2	0.018	119	cfa04380=Osteoclast differentiation
+1	0.018	119	cfa05221=Acute myeloid leukemia
+1	0.018	119	cfa00330=Arginine and proline metabolism
+3	0.017	123	cfa05164=Influenza A
+2	0.017	123	cfa04270=Vascular smooth muscle contraction
+2	0.017	123	cfa04114=Oocyte meiosis
+3	0.016	126	cfa04141=Protein processing in endoplasmic reticulum
+3	0.016	126	cfa04020=Calcium signaling pathway
+2	0.016	126	cfa05160=Hepatitis C
+2	0.016	126	cfa04670=Leukocyte transendothelial migration
+1	0.016	126	cfa05210=Colorectal cancer
+1	0.016	126	cfa04610=Complement and coagulation cascades
+1	0.016	126	cfa04150=mTOR signaling pathway
+4	0.015	133	cfa04010=MAPK signaling pathway
+1	0.015	133	cfa04974=Protein digestion and absorption
+1	0.015	133	cfa04730=Long-term depression
+1	0.015	133	cfa04115=p53 signaling pathway
+1	0.014	137	cfa05220=Chronic myeloid leukemia
+1	0.014	137	cfa04971=Gastric acid secretion
+1	0.014	137	cfa04720=Long-term potentiation
+1	0.014	137	cfa04370=VEGF signaling pathway
+1	0.014	137	cfa04260=Cardiac muscle contraction
+1	0.014	137	cfa03018=RNA degradation
+2	0.013	143	cfa00010=Glycolysis / Gluconeogenesis
+1	0.013	143	cfa04970=Salivary secretion
+1	0.013	143	cfa04520=Adherens junction
+2	0.012	146	cfa04062=Chemokine signaling pathway
+1	0.012	146	cfa05134=Legionellosis
+1	0.012	146	cfa05132=Salmonella infection
+1	0.012	146	cfa04727=GABAergic synapse
+1	0.012	146	cfa04210=Apoptosis
+1	0.011	151	cfa03015=mRNA surveillance pathway
+1	0.010	152	cfa04914=Progesterone-mediated oocyte maturation
+1	0.0098	153	cfa04916=Melanogenesis
+2	0.0095	154	cfa04144=Endocytosis
+1	0.0087	155	cfa04142=Lysosome
+1	0.0086	156	cfa04660=T cell receptor signaling pathway
+1	0.0082	157	cfa04724=Glutamatergic synapse
+2	0.0081	158	cfa04080=Neuroactive ligand-receptor interaction
+1	0.0079	159	cfa04728=Dopaminergic synapse
+2	0.0074	160	cfa05010=Alzheimer's disease
+1	0.0074	160	cfa04722=Neurotrophin signaling pathway
+1	0.0074	160	cfa04120=Ubiquitin mediated proteolysis
+1	0.0068	163	cfa00190=Oxidative phosphorylation
+1	0.0067	164	cfa05012=Parkinson's disease
+1	0.0057	165	cfa03013=RNA transport
+1	0.0056	166	cfa03040=Spliceosome
+1	0.0049	167	cfa05016=Huntington's disease
+1	0.0023	168	cfa04740=Olfactory transduction
+0	0	169	cfa05222=Small cell lung cancer
+0	0	169	cfa05217=Basal cell carcinoma
+0	0	169	cfa05216=Thyroid cancer
+0	0	169	cfa05100=Bacterial invasion of epithelial cells
+0	0	169	cfa05020=Prion diseases
+0	0	169	cfa05014=Amyotrophic lateral sclerosis (ALS)
+0	0	169	cfa04973=Carbohydrate digestion and absorption
+0	0	169	cfa04966=Collecting duct acid secretion
+0	0	169	cfa04962=Vasopressin-regulated water reabsorption
+0	0	169	cfa04961=Endocrine and other factor-regulated calcium reabsorption
+0	0	169	cfa04960=Aldosterone-regulated sodium reabsorption
+0	0	169	cfa04950=Maturity onset diabetes of the young
+0	0	169	cfa04930=Type II diabetes mellitus
+0	0	169	cfa04744=Phototransduction
+0	0	169	cfa04742=Taste transduction
+0	0	169	cfa04725=Cholinergic synapse
+0	0	169	cfa04721=Synaptic vesicle cycle
+0	0	169	cfa04710=Circadian rhythm - mammal
+0	0	169	cfa04623=Cytosolic DNA-sensing pathway
+0	0	169	cfa04622=RIG-I-like receptor signaling pathway
+0	0	169	cfa04530=Tight junction
+0	0	169	cfa04340=Hedgehog signaling pathway
+0	0	169	cfa04310=Wnt signaling pathway
+0	0	169	cfa04140=Regulation of autophagy
+0	0	169	cfa04122=Sulfur relay system
+0	0	169	cfa03050=Proteasome
+0	0	169	cfa03020=RNA polymerase
+0	0	169	cfa03010=Ribosome
+0	0	169	cfa01040=Biosynthesis of unsaturated fatty acids
+0	0	169	cfa00920=Sulfur metabolism
+0	0	169	cfa00910=Nitrogen metabolism
+0	0	169	cfa00900=Terpenoid backbone biosynthesis
+0	0	169	cfa00860=Porphyrin and chlorophyll metabolism
+0	0	169	cfa00790=Folate biosynthesis
+0	0	169	cfa00785=Lipoic acid metabolism
+0	0	169	cfa00780=Biotin metabolism
+0	0	169	cfa00730=Thiamine metabolism
+0	0	169	cfa00670=One carbon pool by folate
+0	0	169	cfa00650=Butanoate metabolism
+0	0	169	cfa00604=Glycosphingolipid biosynthesis - ganglio series
+0	0	169	cfa00603=Glycosphingolipid biosynthesis - globo series
+0	0	169	cfa00601=Glycosphingolipid biosynthesis - lacto and neolacto series
+0	0	169	cfa00600=Sphingolipid metabolism
+0	0	169	cfa00563=Glycosylphosphatidylinositol(GPI)-anchor biosynthesis
+0	0	169	cfa00562=Inositol phosphate metabolism
+0	0	169	cfa00534=Glycosaminoglycan biosynthesis - heparan sulfate
+0	0	169	cfa00533=Glycosaminoglycan biosynthesis - keratan sulfate
+0	0	169	cfa00532=Glycosaminoglycan biosynthesis - chondroitin sulfate
+0	0	169	cfa00531=Glycosaminoglycan degradation
+0	0	169	cfa00520=Amino sugar and nucleotide sugar metabolism
+0	0	169	cfa00514=Other types of O-glycan biosynthesis
+0	0	169	cfa00512=Mucin type O-Glycan biosynthesis
+0	0	169	cfa00511=Other glycan degradation
+0	0	169	cfa00510=N-Glycan biosynthesis
+0	0	169	cfa00472=D-Arginine and D-ornithine metabolism
+0	0	169	cfa00471=D-Glutamine and D-glutamate metabolism
+0	0	169	cfa00460=Cyanoamino acid metabolism
+0	0	169	cfa00430=Taurine and hypotaurine metabolism
+0	0	169	cfa00400=Phenylalanine, tyrosine and tryptophan biosynthesis
+0	0	169	cfa00300=Lysine biosynthesis
+0	0	169	cfa00232=Caffeine metabolism
+0	0	169	cfa00140=Steroid hormone biosynthesis
+0	0	169	cfa00130=Ubiquinone and other terpenoid-quinone biosynthesis
+0	0	169	cfa00120=Primary bile acid biosynthesis
+0	0	169	cfa00100=Steroid biosynthesis
+0	0	169	cfa00072=Synthesis and degradation of ketone bodies
+0	0	169	cfa00062=Fatty acid elongation in mitochondria
+0	0	169	cfa00061=Fatty acid biosynthesis
+0	0	169	cfa00053=Ascorbate and aldarate metabolism
+0	0	169	cfa00051=Fructose and mannose metabolism
+0	0	169	cfa00040=Pentose and glucuronate interconversions
+0	0	169	cfa00030=Pentose phosphate pathway