Closed dsweber2 closed 3 years ago
Merging #50 (0506b46) into master (456b9ae) will increase coverage by
10.20%
. The diff coverage is91.98%
.
@@ Coverage Diff @@
## master #50 +/- ##
===========================================
+ Coverage 83.33% 93.53% +10.20%
===========================================
Files 1 3 +2
Lines 240 464 +224
===========================================
+ Hits 200 434 +234
+ Misses 40 30 -10
Impacted Files | Coverage Δ | |
---|---|---|
src/CoxNet.jl | 90.17% <90.17%> (ø) |
|
src/Multinomial.jl | 93.00% <93.00%> (ø) |
|
src/GLMNet.jl | 95.23% <96.00%> (+11.90%) |
:arrow_up: |
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I appreciate your quick turn-around time.
the duplication of the GLMNetPath struct, which could probably have a type parameter added instead so that it can reuse some of the generic functions
this was easy enough to hack in through parametric types. There shouldn't be too many of them spawned by this, so it seemed a good use.
the duplication of the glmnetcv function for cox duplication of the some of the generic functions like predict
I was under the impression that if they're sufficiently different in execution, using the type dispatch was the correct approach. I didn't really check if they could be integrated cleanly though, so I was mostly relying on the judgement of the original PR.
Another quick question I had, do we know if the results for the added tests line up with the results that R gives? It would be good to double check this if possible
I haven't double checked it, and was assuming that the hand entered values were from R. I don't currently have glmnet working in R (part of the reason I hacked this together in the first place)
CategoricalArray
was causing the 1.0 tests to break. I ditched it by getting more specific with the types in GLMNet.jl's copy of glmnet
and making the y
in Multinomial.jl generic. This didn't cause any tests to break, but it's not the most elegant solution.
I'm not sure what's going on with the broken tests now; check_jerr only has two arguments? the error claims it only has three...
Thanks for the changes, I think this is good to go once we get tests passing. I'm happy to trust that the magic numbers in the test make sense!
I was under the impression that if they're sufficiently different in execution, using the type dispatch was the correct approach. I didn't really check if they could be integrated cleanly though, so I was mostly relying on the judgement of the original PR.
The only reason it stuck out to me was noticing that the cox version of glmnetcv needed to be updated with the rng
change, and I guess in future they'll need to be kept in sync. No big deal, it's not like the package is in constant flux anyway.
I'm not sure what's going on with the broken tests now; check_jerr only has two arguments? the error claims it only has three...
I'm guessing this branch needs to sync with master again, since I went through yesterday and merged a few old PRs and fixed a number of low-hanging issues. This error probably came from https://github.com/JuliaStats/GLMNet.jl/pull/51
For some reason, CategoricalArray
wasn't showing up for the tests on the remote. It worked fine on my computer. So I added it as a test dependency, which seems to have solved the issue. Puzzling though, as I'm on 1.5.3 as well. I think we've addressed most of the extra stuff that came up. Thanks for keeping this maintained.
Thanks again, looks good to me!
Thanks guys to take the package up!
This is a minor rewrite of pull request https://github.com/JuliaStats/GLMNet.jl/pull/10 so that it actually works with the recent version of Julia. I dropped the gadfly plots and dependency, as that would be better done using Recipes in the current Julia ecosystem. I added
@testsets
to demarcate testign the different models. In the process of all this I ran into a usage of the deprecated showarray, so I also fixed that.