Try deployment with docs/Project.toml

.travis.yml

@@ -1,9 +1,8 @@
 language: julia
+codecov: true
+coveralls: true
 
-# for building petri nets in docs
-# sudo: required
-
-dist: trusty
+sudo: false
 
 julia:
   - 1.0
@@ -25,24 +24,12 @@ notifications:
 #  - if [[ -a .git/shallow ]]; then git fetch --unshallow; fi
 #  - julia -e 'Pkg.clone(pwd()); Pkg.build("Example"); Pkg.test("Example"; coverage=true)';
 
-after_success:
-  - julia -e 'if VERSION >= v"0.7.0-" using Pkg end; cd(Pkg.dir("BioSimulator")); Pkg.add("Coverage"); using Coverage; Coveralls.submit(Coveralls.process_folder())';
-  - julia -e 'if VERSION >= v"0.7.0-" using Pkg end; cd(Pkg.dir("BioSimulator")); Pkg.add("Coverage"); using Coverage; Codecov.submit(Codecov.process_folder())';
-
 jobs:
   include:
     - stage: "Documentation"
-      julia: 1.0
+      julia: 1.2
+      os: linux
       script:
-#         - sudo apt-get -qq update
-#         - sudo apt-get install -y pdf2svg
-#         - sudo apt-get install -y texlive-latex-base
-#         - sudo apt-get install -y texlive-binaries
-#         - sudo apt-get install -y texlive-pictures
-#         - sudo apt-get install -y texlive-latex-extra
-#         - julia -e 'using Pkg; Pkg.add("Documenter"); Pkg.add("TikzPictures"); Pkg.add("Plots")'
-        - julia -e 'using Pkg; Pkg.add("Documenter")'
-        - julia --project=docs/ -e 'using Pkg; Pkg.instantiate();
-                                    Pkg.develop(PackageSpec(path=pwd()))'
-        - julia --project=docs/ docs/make.jl
+        - julia --project=docs -e 'using Pkg; Pkg.instantiate(); Pkg.add(PackageSpec(path=pwd()))'
+        - julia --project=docs --color=yes docs/make.jl
       after_success: skip

docs/Project.toml

@@ -0,0 +1,4 @@
+[deps]
+DataFrames = "a93c6f00-e57d-5684-b7b6-d8193f3e46c0"
+Documenter = "e30172f5-a6a5-5a46-863b-614d45cd2de4"
+Plots = "91a5bcdd-55d7-5caf-9e0b-520d859cae80"

docs/src/man/tutorials.md

@@ -60,7 +60,7 @@ Both `SamplePath` and `Ensemble` implement the [IterableTables.jl](https://githu
 This means that they act as *data sources* that can be converted into any supported *data sink*.
 For example, you can convert an `Ensemble` into a `DataFrame`:
 
-```
+```@example neg_autoreg
 using DataFrames
 
 DataFrame(ensemble)
@@ -69,7 +69,7 @@ DataFrame(ensemble)
 Each component of the state vector appears as a column, along with trajectory `trial` and timestamp `t` columns.
 If the conversion does not produce the expected result, one may be able to force the correct behavior using the `tablefy` function:
 
-```
+```@example neg_autoreg
 import BioSimulator: tablefy
 
 DataFrame(tablefy(sample_path)) # DataFrame(sample_path) is currently incorrect