Merge pull request #38 from kescobo/v0-6

v0.6

.github/workflows/TagBot.yml

@@ -0,0 +1,11 @@
+name: TagBot
+on:
+  schedule:
+    - cron: 0 * * * *
+jobs:
+  TagBot:
+    runs-on: ubuntu-latest
+    steps:
+      - uses: JuliaRegistries/TagBot@v1
+        with:
+          token: ${{ secrets.GITHUB_TOKEN }}

Project.toml

@@ -4,7 +4,7 @@ keywords = ["microbiology", "microbiome", "biology"]
 license = "MIT"
 desc = "Functions for working with microbial community data"
 authors = ["kescobo <[email protected]>"]
-version = "0.5.1"
+version = "0.6.0"
 
 [deps]
 DataFrames = "a93c6f00-e57d-5684-b7b6-d8193f3e46c0"

docs/Project.toml

@@ -8,4 +8,4 @@ Microbiome = "3bd8f0ae-a0f2-5238-a5af-e1b399a4940c"
 SpatialEcology = "348f2d5d-71a3-5ad4-b565-8af070f99681"
 
 [compat]
-Documenter = "~0.22"
+Documenter = "0.24"

docs/make.jl

@@ -15,4 +15,5 @@ makedocs(
 
 deploydocs(
     repo = "github.com/BioJulia/Microbiome.jl.git",
+    push_preview=true
 )

docs/src/abundances.md

@@ -21,7 +21,7 @@ Forgive the clutter... ComMatricies name rows as species (which is true in this
 case, but need not be), and columns are "sites" rather than samples. That will
 be fixed eventually.
 
-```@example 1
+```@repl 1
 samplenames(abund)
 featurenames(abund)
 sampletotals(abund) # this is column sums
@@ -31,7 +31,7 @@ featuretotals(abund) # this is row sums
 If you want relative abundance, you can do `relativeabundance(abund)` or
 `relativeabundance!(abund)`:
 
-```@example 1
+```@repl 1
 relativeabundance!(abund);
 
 sampletotals(abund)
@@ -42,7 +42,7 @@ function automatically generates an `n+1` row for `other` containing the
 remaining features. Note - these doesn't modify in-place, so you've gotta
 reassign if you want to update:
 
-```@example 1
+```@repl 1
 abund2 = filterabund(abund, 1);
 
 featurenames(abund2)

docs/src/distances.md

@@ -5,6 +5,10 @@ Quite often, it's useful to boil stuff down to distances between samples.
 from [`Distances.jl`](https://github.com/JuliaStats/Distances.jl)
 to get a symetric distance matrix.
 
+
+At the moment,
+this only works if you're on SpatialEcology.jl's master branch.
+
 ```@example 2
 using Distances
 using Microbiome