SBML loading tests

.gitignore

 .DS_Store
 /Manifest.toml
 docs/build
+test/data/ecoli_core.xml

Project.toml

@@ -16,5 +16,9 @@ Logging = "56ddb016-857b-54e1-b83d-db4d58db5568"
 MAT = "23992714-dd62-5051-b70f-ba57cb901cac"
 Pkg = "44cfe95a-1eb2-52ea-b672-e2afdf69b78f"
 SBML = "e5567a89-2604-4b09-9718-f5f78e97c3bb"
+SHA = "ea8e919c-243c-51af-8825-aaa63cd721ce"
 SparseArrays = "2f01184e-e22b-5df5-ae63-d93ebab69eaf"
 Test = "8dfed614-e22c-5e08-85e1-65c5234f0b40"
+
+[compat]
+julia = "1"

test/io/sbml.jl

+
+sbmlfile = joinpath("data","ecoli_core.xml")
+if !isfile(sbmlfile)
+    download("http://systemsbiology.ucsd.edu/sites/systemsbiology.ucsd.edu/files/Attachments/Images/downloads/Ecoli_core/ecoli_core_model.xml", sbmlfile)
+end
+
+cksum = bytes2hex(sha256(open(sbmlfile)))
+if cksum != "78692f8509fb36534f4f9b6ade23b23552044f3ecd8b48d84d484636922ae907"
+    @warn "The downloaded E Coli core model seems to be different from the expected one. Tests may fail." cksum
+end
+
+@testset "SBML import" begin
+    m = loadSBMLModel(sbmlfile)
+
+    @test size(m.C) == (0,95)
+    @test size(m.S) == (92,95)
+    @test length(m.S.nzval) == 380
+    @test length(m.b) == 92
+    @test all([length(m.xl), length(m.xu), length(m.c)] .== 95)
+
+    @test m.mets[1:3] == ["M_succoa_c", "M_ac_c", "M_fru_b"]
+    @test m.rxns[1:3] == ["R_EX_fum_e", "R_ACONTb", "R_GLNS"]
+end

test/runtests.jl

@@ -6,6 +6,7 @@ using GLPK
 using Clp
 using COBREXA
 using MAT
+using SHA
 using Distributed
 
 """