[Bioc-devel] droplevels method for DataFrame?

[Ryan C. Thompson]

Hi,

Yes, if something is on Github (or just any git/hg repo that I can 
clone) then I'm much more likely to try to fix simple bugs that I 
discover and submit patches or pull requests rather than report them as 
bugs. It doesn't hurt that Github provides tools to submit pull 
requests from the terminal. I've never learned cvs or svn because I 
mostly haven't had the need in the past (haven't been working on 
projects that use cvs/svn).

So in my case, yes, if S4Vectors was on Github I probably would have 
cloned it and tried to fix it before reporting the issue here, and I 
would have either reported it with a patch or explained what I tried 
and where I got stuck.

-Ryan

On Mon 06 Oct 2014 05:55:02 PM PDT, Michael Lawrence wrote:
> Makes sense to me. Just wondering: if S4Vectors were say on github,
> would this be something that you would be comfortable resolving via a
> pull request? Would social coding increase external contributions to
> the infrastructure?
>
> On Mon, Oct 6, 2014 at 5:13 PM, Ryan C. Thompson <rct at thompsonclan.org
> <mailto:rct at thompsonclan.org>> wrote:
>
>     Hi,
>
>     I've just noticed that DataFrame doesn't have a "droplevels"
>     method, but "data.frame" does. In fact, "droplevels.data.frame"
>     seems to work just fine on DataFrame objects. Could this be added?
>
>     -Ryan
>
>
>     > sessionInfo()
>     R version 3.1.0 (2014-04-10)
>     Platform: x86_64-unknown-linux-gnu (64-bit)
>
>     locale:
>      [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C
>      [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8
>      [5] LC_MONETARY=en_US.UTF-8    LC_MESSAGES=en_US.UTF-8
>      [7] LC_PAPER=en_US.UTF-8       LC_NAME=C
>      [9] LC_ADDRESS=C               LC_TELEPHONE=C
>     [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C
>
>     attached base packages:
>     [1] splines   grDevices datasets  parallel  graphics  stats utils
>     [8] methods   base
>
>     other attached packages:
>      [1] DESeq2_1.4.5               RcppArmadillo_0.4.450.1.0
>      [3] Rcpp_0.11.2                cqn_1.10.0
>      [5] quantreg_5.05              SparseM_1.05
>      [7] preprocessCore_1.26.1      nor1mix_1.2-0
>      [9] mclust_4.4                 baySeq_1.18.0
>     [11] DESeq_1.16.0               lattice_0.20-29
>     [13] locfit_1.5-9.1             edgeR_3.6.8
>     [15] limma_3.20.9               arrayQualityMetrics_3.20.0
>     [17] partitions_1.9-15          biomaRt_2.20.0
>     [19] functional_0.6             sqldf_0.4-7.1
>     [21] RSQLite.extfuns_0.0.1      RSQLite_0.11.4
>     [23] DBI_0.3.1                  gsubfn_0.6-6
>     [25] proto_0.3-10               GenomicFeatures_1.16.2
>     [27] AnnotationDbi_1.26.0       chipseq_1.14.0
>     [29] inline_0.3.13              affy_1.42.3
>     [31] Biobase_2.24.0             ShortRead_1.22.0
>     [33] GenomicAlignments_1.0.6    BSgenome_1.32.0
>     [35] BiocParallel_0.6.1         Rsamtools_1.16.1
>     [37] Biostrings_2.32.1          XVector_0.4.0
>     [39] doParallel_1.0.8           iterators_1.0.7
>     [41] rtracklayer_1.24.2         GenomicRanges_1.16.4
>     [43] GenomeInfoDb_1.0.2         Matrix_1.1-4
>     [45] RColorBrewer_1.0-5         foreach_1.4.2
>     [47] plyr_1.8.1                 stringr_0.6.2
>     [49] ggplot2_1.0.0              IRanges_1.22.10
>     [51] BiocGenerics_0.10.0        BiocInstaller_1.14.2
>
>     loaded via a namespace (and not attached):
>      [1] acepack_1.3-3.3      affyio_1.32.0        affyPLM_1.40.1
>      [4] annotate_1.42.1      base64_1.2           base64enc_0.1-2
>      [7] BatchJobs_1.4        BBmisc_1.7           beadarray_2.14.1
>     [10] BeadDataPackR_1.16.0 bitops_1.0-6         brew_1.0-6
>     [13] Cairo_1.5-6          checkmate_1.4        chron_2.3-45
>     [16] cluster_1.15.3       codetools_0.2-9      colorspace_1.2-4
>     [19] compiler_3.1.0       digest_0.6.4         fail_1.2
>     [22] foreign_0.8-61       Formula_1.1-2        gcrma_2.36.0
>     [25] genefilter_1.46.1    geneplotter_1.42.0   gmp_0.5-12
>     [28] grid_3.1.0           gridSVG_1.4-0        gtable_0.1.2
>     [31] Hmisc_3.14-5         hwriter_1.3.2        illuminaio_0.6.1
>     [34] latticeExtra_0.6-26  MASS_7.3-34          munsell_0.4.2
>     [37] nnet_7.3-8           polynom_1.3-8        RCurl_1.96-0
>     [40] reshape2_1.4         RJSONIO_1.2-0.2      rpart_4.1-8
>     [43] scales_0.2.4         sendmailR_1.2-1      setRNG_2013.9-1
>     [46] stats4_3.1.0         survival_2.37-7      SVGAnnotation_0.93-1
>     [49] tools_3.1.0          vsn_3.32.0           XML_3.98-1.1
>     [52] xtable_1.7-4         zlibbioc_1.10.0
>
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