Merge pull request #537 from LCSB-BioCore/develop

Regular merge develop→master

.gitlab-ci.yml

@@ -44,9 +44,9 @@ variables:
 # Test environment & platform settings
 #
 
-.global_julia15: &global_julia15
+.global_julia17: &global_julia17
   variables:
-    JULIA_VER: "v1.5.3"
+    JULIA_VER: "v1.7.0"
 
 .global_julia16: &global_julia16
   variables:
@@ -85,7 +85,7 @@ variables:
 # any available docker and current julia
 #
 
-docker:julia1.6:
+docker:julia1.7:
   stage: test
   image: $CI_REGISTRY/r3/docker/julia-custom
   script:
@@ -99,12 +99,12 @@ docker:julia1.6:
 # built & deployed
 #
 
-linux:julia1.5:
+linux:julia1.7:
   stage: test
   tags:
     - slave01
   <<: *global_trigger_full_tests
-  <<: *global_julia15
+  <<: *global_julia17
   <<: *global_env_linux
 
 linux:julia1.6:
@@ -119,22 +119,22 @@ linux:julia1.6:
 # Additional platform&environment compatibility tests
 #
 
-windows8:julia1.5:
+windows8:julia1.7:
   stage: test-compat
   <<: *global_trigger_compat_tests
-  <<: *global_julia15
+  <<: *global_julia17
   <<: *global_env_win8
 
-windows10:julia1.5:
+windows10:julia1.7:
   stage: test-compat
   <<: *global_trigger_compat_tests
-  <<: *global_julia15
+  <<: *global_julia17
   <<: *global_env_win10
 
-mac:julia1.5:
+mac:julia1.7:
   stage: test-compat
   <<: *global_trigger_compat_tests
-  <<: *global_julia15
+  <<: *global_julia17
   <<: *global_env_mac
 
 windows8:julia1.6:
@@ -221,6 +221,7 @@ documentation-assets:gource:
     - docker run -v "$PWD":/visualization $CI_REGISTRY/r3/docker/gource
   artifacts:
     paths: ['output.gif']
+    expire_in: 1 year
   <<: *global_trigger_build_doc
 
 #
@@ -238,12 +239,12 @@ documentation-assets:gource:
     - julia --project=@. -e 'import Pkg; Pkg.instantiate();'
     - julia --project=@. --color=yes test/doctests.jl
 
-doc-tests-pr:julia1.6:
+doc-tests-pr:julia1.7:
   stage: documentation
   <<: *global_doctests
   <<: *global_trigger_pull_request
 
-doc-tests:julia1.6:
+doc-tests:julia1.7:
   stage: test
   <<: *global_doctests
   <<: *global_trigger_full_tests

Project.toml

@@ -1,10 +1,9 @@
 name = "COBREXA"
 uuid = "babc4406-5200-4a30-9033-bf5ae714c842"
 authors = ["The developers of COBREXA.jl"]
-version = "1.1"
+version = "1.1.1"
 
 [deps]
-Dates = "ade2ca70-3891-5945-98fb-dc099432e06a"
 Distributed = "8ba89e20-285c-5b6f-9357-94700520ee1b"
 DistributedData = "f6a0035f-c5ac-4ad0-b410-ad102ced35df"
 JSON = "682c06a0-de6a-54ab-a142-c8b1cf79cde6"
@@ -23,29 +22,25 @@ Statistics = "10745b16-79ce-11e8-11f9-7d13ad32a3b2"
 
 [compat]
 DistributedData = "0.1.4"
-Documenter = "0.26"
 JSON = "0.21"
 JuMP = "0.21"
-Literate = "2.8"
 MAT = "0.10"
 MacroTools = "0.5.6"
 OSQP = "0.6"
 OrderedCollections = "1.4"
-SBML = "0.7, 0.8"
+SBML = "0.7, 0.8.2"
 StableRNGs = "1.0"
 Tulip = "0.7"
-julia = "1"
+julia = "1.5, 1.6, 1.7"
 
 [extras]
 Aqua = "4c88cf16-eb10-579e-8560-4a9242c79595"
-Documenter = "e30172f5-a6a5-5a46-863b-614d45cd2de4"
 Downloads = "f43a241f-c20a-4ad4-852c-f6b1247861c6"
 GLPK = "60bf3e95-4087-53dc-ae20-288a0d20c6a6"
-Literate = "98b081ad-f1c9-55d3-8b20-4c87d4299306"
 OSQP = "ab2f91bb-94b4-55e3-9ba0-7f65df51de79"
 SHA = "ea8e919c-243c-51af-8825-aaa63cd721ce"
 Test = "8dfed614-e22c-5e08-85e1-65c5234f0b40"
 Tulip = "6dd1b50a-3aae-11e9-10b5-ef983d2400fa"
 
 [targets]
-test = ["Aqua", "Downloads", "OSQP", "SHA", "Test", "Tulip", "GLPK"]
+test = ["Aqua", "Downloads", "GLPK", "OSQP", "SHA", "Test", "Tulip"]

docs/Project.toml

@@ -12,3 +12,4 @@ Tulip = "6dd1b50a-3aae-11e9-10b5-ef983d2400fa"
 
 [compat]
 Documenter = "0.26"
+Literate = "2.8"