[R/inference_chisqstatistic.R:71:59:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_chisqstatistic.R#L71) *style:* **Variable and function names should be all lowercase.**
```r
  grp.indexes <- dplyr::group_indices(obj, Virus, Screen, ReadoutType,
                                                          ^~~~~~~~~~~
```
[R/inference_chisqstatistic.R:72:39:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_chisqstatistic.R#L72) *style:* **Variable and function names should be all lowercase.**
```r
                                      ScreenType, Library, Design, Cell)
                                      ^~~~~~~~~~
```
[R/inference_chisqstatistic.R:85:52:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_chisqstatistic.R#L85) *style:* **Variable and function names should be all lowercase.**
```r
                                           grp.dat$ScreenType[1],
                                                   ^~~~~~~~~~
```
[R/inference_chisqstatistic.R:86:52:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_chisqstatistic.R#L86) *style:* **Variable and function names should be all lowercase.**
```r
                                           grp.dat$ReadoutType[1],
                                                   ^~~~~~~~~~~
```
[R/inference_diffuse_knn.R:38:59:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse_knn.R#L38) *style:* **Variable and function names should be all lowercase.**
```r
       dplyr::filter(Idx %in% as.integer(names(neighs))))$GeneSymbol
                                                          ^~~~~~~~~~
```
[R/inference_diffuse_knn.R:43:21:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse_knn.R#L43) *style:* **Variable and function names should be all lowercase.**
```r
      dplyr::select(GeneSymbol, Effect)}
                    ^~~~~~~~~~
```
[R/inference_diffuse_knn.R:52:49:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse_knn.R#L52) *style:* **Variable and function names should be all lowercase.**
```r
  genes.found <- dplyr::select(flat.dat, Start, GeneSymbol) %>%
                                                ^~~~~~~~~~
```
[R/inference_diffuse_mrw.R:36:44:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse_mrw.R#L36) *style:* **Variable and function names should be all lowercase.**
```r
  li  <- list(diffusion=dplyr::select(res, GeneSymbol, Effect, DiffusionEffect),
                                           ^~~~~~~~~~
```
[R/inference_diffuse_mrw.R:36:64:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse_mrw.R#L36) *style:* **Variable and function names should be all lowercase.**
```r
  li  <- list(diffusion=dplyr::select(res, GeneSymbol, Effect, DiffusionEffect),
                                                               ^~~~~~~~~~~~~~~
```
[R/inference_diffuse_mrw.R:50:22:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse_mrw.R#L50) *style:* **Variable and function names should be all lowercase.**
```r
  diffuse.data$frame$DiffusionEffect <- mrw
                     ^~~~~~~~~~~~~~~
```
[R/inference_diffuse_mrw.R:72:58:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse_mrw.R#L72) *style:* **Variable and function names should be all lowercase.**
```r
  boot.g <- tidyr::gather(bootstrap.hits, Boot, Effect, -GeneSymbol) %>%
                                                         ^~~~~~~~~~
```
[R/inference_diffuse_mrw.R:85:1:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse_mrw.R#L85) *style:* **lines should not be more than 80 characters.**
```r
  # -> calculate means -> calculate alphas -> calculate variance -> calculate alpha_0
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/inference_diffuse_mrw.R:91:21:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse_mrw.R#L91) *style:* **Variable and function names should be all lowercase.**
```r
    dplyr::group_by(GeneSymbol) %>%
                    ^~~~~~~~~~
```
[R/inference_diffuse_mrw.R:93:29:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse_mrw.R#L93) *style:* **Variable and function names should be all lowercase.**
```r
                       mean(DiffusionEffect, na.rm=T)) %>%
                            ^~~~~~~~~~~~~~~
```
[R/inference_diffuse_mrw.R:96:57:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse_mrw.R#L96) *style:* **Variable and function names should be all lowercase.**
```r
                          tidyr::spread(flat.dat, boot, DiffusionEffect),
                                                        ^~~~~~~~~~~~~~~
```
[R/inference_diffuse.R:88:39:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse.R#L88) *style:* **Variable and function names should be all lowercase.**
```r
    hits   <- dplyr::select(obj@.data$gene.hitsGeneSymbol, abs(Effect))
                                      ^~~~~~~~~~~~~~~~~~~
```
[R/inference_diffuse.R:94:23:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse.R#L94) *style:* **Variable and function names should be all lowercase.**
```r
        dplyr::filter(GeneSymbol %in% hits$GeneSymbol) %>%
                      ^~~~~~~~~~
```
[R/inference_diffuse.R:94:44:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse.R#L94) *style:* **Variable and function names should be all lowercase.**
```r
        dplyr::filter(GeneSymbol %in% hits$GeneSymbol) %>%
                                           ^~~~~~~~~~
```
[R/inference_diffuse.R:95:24:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse.R#L95) *style:* **Variable and function names should be all lowercase.**
```r
        dplyr::select(-MeanBootstrap, -Pval, -FDR)
                       ^~~~~~~~~~~~~
```
[R/inference_diffuse.R:151:44:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse.R#L151) *style:* **Variable and function names should be all lowercase.**
```r
  li  <- list(diffusion=dplyr::select(res, GeneSymbol, Effect, DiffusionEffect),
                                           ^~~~~~~~~~
```
[R/inference_diffuse.R:151:64:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse.R#L151) *style:* **Variable and function names should be all lowercase.**
```r
  li  <- list(diffusion=dplyr::select(res, GeneSymbol, Effect, DiffusionEffect),
                                                               ^~~~~~~~~~~~~~~
```
[R/inference_diffuse.R:165:22:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse.R#L165) *style:* **Variable and function names should be all lowercase.**
```r
  diffuse.data$frame$DiffusionEffect <- mrw
                     ^~~~~~~~~~~~~~~
```
[R/inference_diffuse.R:187:58:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse.R#L187) *style:* **Variable and function names should be all lowercase.**
```r
  boot.g <- tidyr::gather(bootstrap.hits, Boot, Effect, -GeneSymbol) %>%
                                                         ^~~~~~~~~~
```
[R/inference_diffuse.R:200:1:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse.R#L200) *style:* **lines should not be more than 80 characters.**
```r
  # -> calculate means -> calculate alphas -> calculate variance -> calculate alpha_0
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/inference_diffuse.R:206:21:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse.R#L206) *style:* **Variable and function names should be all lowercase.**
```r
    dplyr::group_by(GeneSymbol) %>%
                    ^~~~~~~~~~
```
[R/inference_diffuse.R:208:29:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse.R#L208) *style:* **Variable and function names should be all lowercase.**
```r
                       mean(DiffusionEffect, na.rm=T)) %>%
                            ^~~~~~~~~~~~~~~
```
[R/inference_diffuse.R:211:57:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse.R#L211) *style:* **Variable and function names should be all lowercase.**
```r
                          tidyr::spread(flat.dat, boot, DiffusionEffect),
                                                        ^~~~~~~~~~~~~~~
```
[R/inference_diffuse.R:230:56:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse.R#L230) *style:* **Variable and function names should be all lowercase.**
```r
    dplyr::filter(Idx %in% as.integer(names(neighs))))$GeneSymbol
                                                       ^~~~~~~~~~
```
[R/inference_diffuse.R:234:21:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse.R#L234) *style:* **Variable and function names should be all lowercase.**
```r
      dplyr::select(GeneSymbol, Effect)}
                    ^~~~~~~~~~
```
[R/inference_diffuse.R:243:49:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_diffuse.R#L243) *style:* **Variable and function names should be all lowercase.**
```r
  genes.found <- dplyr::select(flat.dat, Start, GeneSymbol) %>%
                                                ^~~~~~~~~~
```
[R/inference_gesper.R:60:47:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_gesper.R#L60) *style:* **Variable and function names should be all lowercase.**
```r
    dplyr::filter(obj, !is.na(Entrez), !is.na(siRNAIDs)) %>%
                                              ^~~~~~~~
```
[R/inference_gesper.R:66:33:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_gesper.R#L66) *style:* **Variable and function names should be all lowercase.**
```r
    res <- dplyr::group_by(res, GeneSymbol) %>%
                                ^~~~~~~~~~
```
[R/inference_gesper.R:73:10:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_gesper.R#L73) *style:* **Variable and function names should be all lowercase.**
```r
  res <- .gespeR(res, path)
         ^~~~~~~
```
[R/inference_gesper.R:80:1:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_gesper.R#L80) *style:* **Variable and function names should be all lowercase.**
```r
.gespeR <- function(obj, path)
^~~~~~~
```
[R/inference_gesper.R:84:1:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_gesper.R#L84) *style:* **lines should not be more than 80 characters.**
```r
  # init the matrices so that all entrez id that are not in both matrices are discarded
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/inference_gesper.R:91:61:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_gesper.R#L91) *style:* **Variable and function names should be all lowercase.**
```r
                               ids=as.character(pheno.frame$siRNAIDs),
                                                            ^~~~~~~~
```
[R/inference_gesper.R:105:45:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_gesper.R#L105) *style:* **Variable and function names should be all lowercase.**
```r
                         dplyr::select(obj, GeneSymbol, Entrez) %>% unique,
                                            ^~~~~~~~~~
```
[R/inference_gesper.R:107:26:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_gesper.R#L107) *style:* **Variable and function names should be all lowercase.**
```r
    dplyr::filter(!is.na(GeneSymbol))
                         ^~~~~~~~~~
```
[R/inference_gesper.R:119:26:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_gesper.R#L119) *style:* **Variable and function names should be all lowercase.**
```r
    dplyr::select(Virus, GeneSymbol, Entrez, siRNAIDs, Readout) %>%
                         ^~~~~~~~~~
```
[R/inference_gesper.R:119:46:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_gesper.R#L119) *style:* **Variable and function names should be all lowercase.**
```r
    dplyr::select(Virus, GeneSymbol, Entrez, siRNAIDs, Readout) %>%
                                             ^~~~~~~~
```
[R/inference_gesper.R:120:13:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_gesper.R#L120) *style:* **Variable and function names should be all lowercase.**
```r
    .[order(siRNAIDs)]
            ^~~~~~~~
```
[R/inference_gesper.R:123:44:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_gesper.R#L123) *style:* **Variable and function names should be all lowercase.**
```r
  pheno.sirnas   <- as.character(pheno.mat$siRNAIDs)
                                           ^~~~~~~~
```
[R/inference_gesper.R:169:48:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_gesper.R#L169) *style:* **Variable and function names should be all lowercase.**
```r
                            siRNAIDs=pheno.mat$siRNAIDs,
                                               ^~~~~~~~
```
[R/inference_gesper.R:176:43:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_gesper.R#L176) *style:* **Variable and function names should be all lowercase.**
```r
  assertthat::assert_that(all(pheno.frame$siRNAIDs == rel.mat@siRNAs))
                                          ^~~~~~~~
```
[R/inference_gesper.R:177:43:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_gesper.R#L177) *style:* **Variable and function names should be all lowercase.**
```r
  assertthat::assert_that(all(pheno.frame$siRNAIDs ==
                                          ^~~~~~~~
```
[R/inference_gesper.R:191:50:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_gesper.R#L191) *style:* **Variable and function names should be all lowercase.**
```r
    dplyr::mutate(siRNAIDs=strsplit(as.character(siRNAIDs), ",")) %>%
                                                 ^~~~~~~~
```
[R/inference_gesper.R:192:19:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_gesper.R#L192) *style:* **Variable and function names should be all lowercase.**
```r
    tidyr::unnest(siRNAIDs)
                  ^~~~~~~~
```
[R/inference_gesper.R:208:1:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_gesper.R#L208) *style:* **Variable and function names should be all lowercase.**
```r
.prioritize.gespeR <- function(obj,
^~~~~~~~~~~~~~~~~~
```
[R/inference_hyperstatistic.R:100:59:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L100) *style:* **Variable and function names should be all lowercase.**
```r
  grp.indexes <- dplyr::group_indices(obj, Virus, Screen, ReadoutType,
                                                          ^~~~~~~~~~~
```
[R/inference_hyperstatistic.R:101:39:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L101) *style:* **Variable and function names should be all lowercase.**
```r
                                      ScreenType, Library, Design, Cell)
                                      ^~~~~~~~~~
```
[R/inference_hyperstatistic.R:114:52:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L114) *style:* **Variable and function names should be all lowercase.**
```r
                                           grp.dat$ScreenType[1],
                                                   ^~~~~~~~~~
```
[R/inference_hyperstatistic.R:115:52:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L115) *style:* **Variable and function names should be all lowercase.**
```r
                                           grp.dat$ReadoutType[1],
                                                   ^~~~~~~~~~~
```
[R/inference_hyperstatistic.R:145:28:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L145) *style:* **Variable and function names should be all lowercase.**
```r
                           ScreenType, ReadoutType,
                           ^~~~~~~~~~
```
[R/inference_hyperstatistic.R:145:40:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L145) *style:* **Variable and function names should be all lowercase.**
```r
                           ScreenType, ReadoutType,
                                       ^~~~~~~~~~~
```
[R/inference_hyperstatistic.R:147:35:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L147) *style:* **Variable and function names should be all lowercase.**
```r
                           Plate, RowIdx, ColIdx,
                                  ^~~~~~
```
[R/inference_hyperstatistic.R:147:43:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L147) *style:* **Variable and function names should be all lowercase.**
```r
                           Plate, RowIdx, ColIdx,
                                          ^~~~~~
```
[R/inference_hyperstatistic.R:148:28:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L148) *style:* **Variable and function names should be all lowercase.**
```r
                           GeneSymbol, Entrez, siRNAIDs) %>%
                           ^~~~~~~~~~
```
[R/inference_hyperstatistic.R:148:48:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L148) *style:* **Variable and function names should be all lowercase.**
```r
                           GeneSymbol, Entrez, siRNAIDs) %>%
                                               ^~~~~~~~
```
[R/inference_hyperstatistic.R:162:55:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L162) *style:* **Variable and function names should be all lowercase.**
```r
  res <- dplyr::group_by(res, Virus, Screen, Library, ReadoutType, ScreenType,
                                                      ^~~~~~~~~~~
```
[R/inference_hyperstatistic.R:162:68:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L162) *style:* **Variable and function names should be all lowercase.**
```r
  res <- dplyr::group_by(res, Virus, Screen, Library, ReadoutType, ScreenType,
                                                                   ^~~~~~~~~~
```
[R/inference_hyperstatistic.R:164:35:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L164) *style:* **Variable and function names should be all lowercase.**
```r
    dplyr::mutate(HRes=.hypertest(GeneSymbol, siRNAIDs, Plate,
                                  ^~~~~~~~~~
```
[R/inference_hyperstatistic.R:164:47:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L164) *style:* **Variable and function names should be all lowercase.**
```r
    dplyr::mutate(HRes=.hypertest(GeneSymbol, siRNAIDs, Plate,
                                              ^~~~~~~~
```
[R/inference_hyperstatistic.R:165:35:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L165) *style:* **Variable and function names should be all lowercase.**
```r
                                  RowIdx, ColIdx, Readout, level)) %>%
                                  ^~~~~~
```
[R/inference_hyperstatistic.R:165:43:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L165) *style:* **Variable and function names should be all lowercase.**
```r
                                  RowIdx, ColIdx, Readout, level)) %>%
                                          ^~~~~~
```
[R/inference_hyperstatistic.R:175:27:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L175) *style:* **Variable and function names should be all lowercase.**
```r
  data.table::setDT(res)[,HyperRank := cumsum(res$Hit)]
                          ^~~~~~~~~
```
[R/inference_hyperstatistic.R:176:36:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L176) *style:* **Variable and function names should be all lowercase.**
```r
  data.table::setDT(res)[Hit == 0, HyperRank := NA_integer_]
                                   ^~~~~~~~~
```
[R/inference_hyperstatistic.R:197:1:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L197) *style:* **lines should not be more than 80 characters.**
```r
  ## if we do the hypergeometric test on genes we need another grouping as for siRNAs
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/inference_hyperstatistic.R:254:26:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L254) *style:* **Variable and function names should be all lowercase.**
```r
                         ScreenType, ReadoutType,
                         ^~~~~~~~~~
```
[R/inference_hyperstatistic.R:254:38:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L254) *style:* **Variable and function names should be all lowercase.**
```r
                         ScreenType, ReadoutType,
                                     ^~~~~~~~~~~
```
[R/inference_hyperstatistic.R:256:26:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L256) *style:* **Variable and function names should be all lowercase.**
```r
                         GeneSymbol, Entrez) %>%
                         ^~~~~~~~~~
```
[R/inference_hyperstatistic.R:268:19:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_hyperstatistic.R#L268) *style:* **Variable and function names should be all lowercase.**
```r
    dplyr::filter(HitRatio >= hit.ratio)
                  ^~~~~~~~
```
[R/inference_lmm_fdr_ge.R:37:62:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_ge.R#L37) *style:* **Variable and function names should be all lowercase.**
```r
    dt <- data.table::data.table(GeneSymbol=ref$gene.effects$GeneSymbol,
                                                             ^~~~~~~~~~
```
[R/inference_lmm_fdr_ge.R:59:38:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_ge.R#L59) *style:* **Variable and function names should be all lowercase.**
```r
        GeneSymbol = re$gene.effects$GeneSymbol
                                     ^~~~~~~~~~
```
[R/inference_lmm_fdr_ge.R:90:31:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_ge.R#L90) *style:* **Variable and function names should be all lowercase.**
```r
    dplyr::group_by(btst.dat, GeneSymbol) %>%
                              ^~~~~~~~~~
```
[R/inference_lmm_fdr_gpe.R:89:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L89) *style:* **Use <-, not =, for assignment.**
```r
  call = match.call()
       ^
```
[R/inference_lmm_fdr_gpe.R:106:13:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L106) *style:* **Use <-, not =, for assignment.**
```r
        med = median(zz)
            ^
```
[R/inference_lmm_fdr_gpe.R:107:12:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L107) *style:* **Use <-, not =, for assignment.**
```r
        ra = med + (1 - pct) * (range(zz) - med)
           ^
```
[R/inference_lmm_fdr_gpe.R:108:12:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L108) *style:* **Use <-, not =, for assignment.**
```r
        lo = ra[1]
           ^
```
[R/inference_lmm_fdr_gpe.R:109:12:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L109) *style:* **Use <-, not =, for assignment.**
```r
        up = ra[2]
           ^
```
[R/inference_lmm_fdr_gpe.R:146:9:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L146) *style:* **Use <-, not =, for assignment.**
```r
    fp0 = matrix(NA, 6, 4)
        ^
```
[R/inference_lmm_fdr_gpe.R:147:19:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L147) *style:* **Use <-, not =, for assignment.**
```r
    colnames(fp0) = c("delta", "sigleft", "p0", "sigright")
                  ^
```
[R/inference_lmm_fdr_gpe.R:150:9:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L150) *style:* **Use <-, not =, for assignment.**
```r
    fp0 = matrix(NA, 6, 3)
        ^
```
[R/inference_lmm_fdr_gpe.R:151:19:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L151) *style:* **Use <-, not =, for assignment.**
```r
    colnames(fp0) = c("delta", "sigma", "p0")
                  ^
```
[R/inference_lmm_fdr_gpe.R:153:17:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L153) *style:* **Use <-, not =, for assignment.**
```r
  rownames(fp0) = c("thest", "theSD", "mlest", "mleSD", "cmest",  "cmeSD")
                ^
```
[R/inference_lmm_fdr_gpe.R:154:21:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L154) *style:* **Use <-, not =, for assignment.**
```r
  fp0["thest", 1:2] = c(0, 1)
                    ^
```
[R/inference_lmm_fdr_gpe.R:155:21:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L155) *style:* **Use <-, not =, for assignment.**
```r
  fp0["theSD", 1:2] = 0
                    ^
```
[R/inference_lmm_fdr_gpe.R:181:13:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L181) *style:* **Use <-, not =, for assignment.**
```r
    cmerror = I(is.na(co[3]) | is.na(co[2]))
            ^
```
[R/inference_lmm_fdr_gpe.R:183:15:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L183) *style:* **Use <-, not =, for assignment.**
```r
      cmerror = I(co[2] >= 0 | co[2] + co[3] >= 0)
              ^
```
[R/inference_lmm_fdr_gpe.R:186:13:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L186) *style:* **Use <-, not =, for assignment.**
```r
    cmerror = is.na(co[3])
            ^
```
[R/inference_lmm_fdr_gpe.R:188:15:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L188) *style:* **Use <-, not =, for assignment.**
```r
      cmerror = I(co[3] >= 0)
              ^
```
[R/inference_lmm_fdr_gpe.R:218:5:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L218) *style:* **Use <-, not =, for assignment.**
```r
  b = 4.3 * exp(-0.26 * log(N, 10))
    ^
```
[R/inference_lmm_fdr_gpe.R:220:9:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L220) *style:* **Use <-, not =, for assignment.**
```r
    med = median(zz)
        ^
```
[R/inference_lmm_fdr_gpe.R:221:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L221) *style:* **Use <-, not =, for assignment.**
```r
    sc = diff(quantile(zz)[c(2, 4)])/(2 * stats::qnorm(0.75))
       ^
```
[R/inference_lmm_fdr_gpe.R:222:12:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L222) *style:* **Use <-, not =, for assignment.**
```r
    mlests = locmle(zz, xlim = c(med, b * sc))
           ^
```
[R/inference_lmm_fdr_gpe.R:224:1:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L224) *style:* **lines should not be more than 80 characters.**
```r
      warning("length(zz) > 500,000: For ML estimation, a wider interval than optimal was used.  To use the optimal interval, rerun with mlests = c(",
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/inference_lmm_fdr_gpe.R:226:14:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L226) *style:* **Use <-, not =, for assignment.**
```r
      mlests = locmle(zz, xlim = c(med, sc))
             ^
```
[R/inference_lmm_fdr_gpe.R:231:9:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L231) *style:* **Use <-, not =, for assignment.**
```r
      b = 1
        ^
```
[R/inference_lmm_fdr_gpe.R:233:14:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L233) *style:* **Use <-, not =, for assignment.**
```r
      Cov.in = list(x = x, X = X, f = f, sw = sw)
             ^
```
[R/inference_lmm_fdr_gpe.R:234:14:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L234) *style:* **Use <-, not =, for assignment.**
```r
      ml.out = locmle(zz, xlim = c(mlests[1], b * mlests[2]),
             ^
```
[R/inference_lmm_fdr_gpe.R:236:14:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L236) *style:* **Use <-, not =, for assignment.**
```r
      mlests = ml.out$mle
             ^
```
[R/inference_lmm_fdr_gpe.R:238:17:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L238) *style:* **Use <-, not =, for assignment.**
```r
    else mlests = locmle(zz, xlim = c(mlests[1], b * mlests[2]),
                ^
```
[R/inference_lmm_fdr_gpe.R:240:23:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L240) *style:* **Use <-, not =, for assignment.**
```r
    fp0["mlest", 1:3] = mlests[1:3]
                      ^
```
[R/inference_lmm_fdr_gpe.R:241:23:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L241) *style:* **Use <-, not =, for assignment.**
```r
    fp0["mleSD", 1:3] = mlests[4:6]
                      ^
```
[R/inference_lmm_fdr_gpe.R:245:1:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L245) *style:* **lines should not be more than 80 characters.**
```r
                                                              2]/mlests[2])) > 0.05)
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/inference_lmm_fdr_gpe.R:246:1:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L246) *style:* **lines should not be more than 80 characters.**
```r
      warning("Discrepancy between central matching and maximum likelihood estimates.\nConsider rerunning with nulltype = 1")
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/inference_lmm_fdr_gpe.R:256:12:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L256) *style:* **Use <-, not =, for assignment.**
```r
    delhat = xmax = xmaxx = mlests[1]
           ^
```
[R/inference_lmm_fdr_gpe.R:256:19:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L256) *style:* **Use <-, not =, for assignment.**
```r
    delhat = xmax = xmaxx = mlests[1]
                  ^
```
[R/inference_lmm_fdr_gpe.R:256:27:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L256) *style:* **Use <-, not =, for assignment.**
```r
    delhat = xmax = xmaxx = mlests[1]
                          ^
```
[R/inference_lmm_fdr_gpe.R:257:12:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L257) *style:* **Use <-, not =, for assignment.**
```r
    sighat = mlests[2]
           ^
```
[R/inference_lmm_fdr_gpe.R:258:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L258) *style:* **Use <-, not =, for assignment.**
```r
    p0 = mlests[3]
       ^
```
[R/inference_lmm_fdr_gpe.R:259:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L259) *style:* **Use <-, not =, for assignment.**
```r
    f0 = stats::dnorm(x, delhat, sighat)
       ^
```
[R/inference_lmm_fdr_gpe.R:260:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L260) *style:* **Use <-, not =, for assignment.**
```r
    f0 = (sum(f) * f0)/sum(f0)
       ^
```
[R/inference_lmm_fdr_gpe.R:262:7:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L262) *style:* **Use <-, not =, for assignment.**
```r
  fdr = pmin((p0 * f0)/f, 1)
      ^
```
[R/inference_lmm_fdr_gpe.R:266:19:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L266) *style:* **Use <-, not =, for assignment.**
```r
  fp0["thest", 3] = p0theo
                  ^
```
[R/inference_lmm_fdr_gpe.R:278:13:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L278) *style:* **Use <-, not =, for assignment.**
```r
  else xxlo = xmax
            ^
```
[R/inference_lmm_fdr_gpe.R:281:13:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L281) *style:* **Use <-, not =, for assignment.**
```r
  else xxhi = xmax
            ^
```
[R/inference_lmm_fdr_gpe.R:286:13:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L286) *style:* **Use <-, not =, for assignment.**
```r
  else xxlo = xmax
            ^
```
[R/inference_lmm_fdr_gpe.R:289:13:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L289) *style:* **Use <-, not =, for assignment.**
```r
  else xxhi = xmax
            ^
```
[R/inference_lmm_fdr_gpe.R:293:66:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L293) *style:* **Use <-, not =, for assignment.**
```r
    fdr[x >= mlests[1] - mlests[2] & x <= mlests[1] + mlests[2]] = 1
                                                                 ^
```
[R/inference_lmm_fdr_gpe.R:294:67:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L294) *style:* **Use <-, not =, for assignment.**
```r
    fdr0[x >= mlests[1] - mlests[2] & x <= mlests[1] + mlests[2]] = 1
                                                                  ^
```
[R/inference_lmm_fdr_gpe.R:305:1:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L305) *style:* **lines should not be more than 80 characters.**
```r
                                                             fdr[ido]) * fall[ido])
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/inference_lmm_fdr_gpe.R:307:1:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L307) *style:* **lines should not be more than 80 characters.**
```r
                                                                fdr0[ido]) * fall[ido])
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/inference_lmm_fdr_gpe.R:309:1:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L309) *style:* **lines should not be more than 80 characters.**
```r
                                                              fdr[iup]) * fall[iup])
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/inference_lmm_fdr_gpe.R:311:1:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L311) *style:* **lines should not be more than 80 characters.**
```r
                                                                 fdr0[iup]) * fall[iup])
^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
```
[R/inference_lmm_fdr_gpe.R:313:28:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L313) *style:* **Use <-, not =, for assignment.**
```r
  Efdr[which(is.na(Efdr))] = 1
                           ^
```
[R/inference_lmm_fdr_gpe.R:320:9:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L320) *style:* **Use <-, not =, for assignment.**
```r
    mul = c(1, mult)
        ^
```
[R/inference_lmm_fdr_gpe.R:321:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L321) *style:* **Use <-, not =, for assignment.**
```r
    EE = rep(0, length(mul))
       ^
```
[R/inference_lmm_fdr_gpe.R:323:10:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L323) *style:* **Use <-, not =, for assignment.**
```r
      xe = sqrt(mul[m]) * x
         ^
```
[R/inference_lmm_fdr_gpe.R:324:11:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L324) *style:* **Use <-, not =, for assignment.**
```r
      f1e = approx(xe, f1, x, rule = 2, ties = mean)$y
          ^
```
[R/inference_lmm_fdr_gpe.R:325:11:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L325) *style:* **Use <-, not =, for assignment.**
```r
      f1e = (f1e * sum(f1))/sum(f1e)
          ^
```
[R/inference_lmm_fdr_gpe.R:326:11:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L326) *style:* **Use <-, not =, for assignment.**
```r
      f0e = f0
          ^
```
[R/inference_lmm_fdr_gpe.R:327:11:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L327) *style:* **Use <-, not =, for assignment.**
```r
      p0e = p0
          ^
```
[R/inference_lmm_fdr_gpe.R:329:13:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L329) *style:* **Use <-, not =, for assignment.**
```r
        f0e = f00
            ^
```
[R/inference_lmm_fdr_gpe.R:330:13:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L330) *style:* **Use <-, not =, for assignment.**
```r
        p0e = p0theo
            ^
```
[R/inference_lmm_fdr_gpe.R:332:12:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L332) *style:* **Use <-, not =, for assignment.**
```r
      fdre = (p0e * f0e)/(p0e * f0e + f1e)
           ^
```
[R/inference_lmm_fdr_gpe.R:333:13:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L333) *style:* **Use <-, not =, for assignment.**
```r
      EE[m] = sum(f1e * fdre)/sum(f1e)
            ^
```
[R/inference_lmm_fdr_gpe.R:335:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L335) *style:* **Use <-, not =, for assignment.**
```r
    EE = EE/EE[1]
       ^
```
[R/inference_lmm_fdr_gpe.R:336:15:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L336) *style:* **Use <-, not =, for assignment.**
```r
    names(EE) = mul
              ^
```
[R/inference_lmm_fdr_gpe.R:338:12:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L338) *style:* **Use <-, not =, for assignment.**
```r
  Cov2.out = loccov2(X, X0, i0, f, fp0["cmest", ], N)
           ^
```
[R/inference_lmm_fdr_gpe.R:339:12:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L339) *style:* **Use <-, not =, for assignment.**
```r
  Cov0.out = loccov2(X, matrix(1, length(x), 1), i0, f, fp0["thest",
           ^
```
[R/inference_lmm_fdr_gpe.R:343:13:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L343) *style:* **Use <-, not =, for assignment.**
```r
      Ilfdr = Cov0.out$Ilfdr
            ^
```
[R/inference_lmm_fdr_gpe.R:345:13:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L345) *style:* **Use <-, not =, for assignment.**
```r
      Ilfdr = ml.out$Ilfdr
            ^
```
[R/inference_lmm_fdr_gpe.R:347:13:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L347) *style:* **Use <-, not =, for assignment.**
```r
      Ilfdr = Cov2.out$Ilfdr
            ^
```
[R/inference_lmm_fdr_gpe.R:352:9:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L352) *style:* **Use <-, not =, for assignment.**
```r
    Cov = Cov0.out$Cov
        ^
```
[R/inference_lmm_fdr_gpe.R:354:9:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L354) *style:* **Use <-, not =, for assignment.**
```r
    Cov = ml.out$Cov.lfdr
        ^
```
[R/inference_lmm_fdr_gpe.R:355:12:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L355) *style:* **Use <-, not =, for assignment.**
```r
  else Cov = Cov2.out$Cov
           ^
```
[R/inference_lmm_fdr_gpe.R:357:21:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L357) *style:* **Use <-, not =, for assignment.**
```r
  fp0["cmeSD", 1:3] = Cov2.out$stdev[c(2, 3, 1)]
                    ^
```
[R/inference_lmm_fdr_gpe.R:359:21:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L359) *style:* **Use <-, not =, for assignment.**
```r
    fp0["cmeSD", 4] = fp0["cmeSD", 2]
                    ^
```
[R/inference_lmm_fdr_gpe.R:360:19:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L360) *style:* **Use <-, not =, for assignment.**
```r
  fp0["theSD", 3] = Cov0.out$stdev[1]
                  ^
```
[R/inference_lmm_fdr_gpe.R:363:11:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L363) *style:* **Use <-, not =, for assignment.**
```r
      pds = fp0["thest", c(3, 1, 2)]
          ^
```
[R/inference_lmm_fdr_gpe.R:364:13:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L364) *style:* **Use <-, not =, for assignment.**
```r
      stdev = fp0["theSD", c(3, 1, 2)]
            ^
```
[R/inference_lmm_fdr_gpe.R:365:12:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L365) *style:* **Use <-, not =, for assignment.**
```r
      pds. = t(Cov0.out$pds.)
           ^
```
[R/inference_lmm_fdr_gpe.R:368:11:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L368) *style:* **Use <-, not =, for assignment.**
```r
      pds = fp0["mlest", c(3, 1, 2)]
          ^
```
[R/inference_lmm_fdr_gpe.R:369:13:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L369) *style:* **Use <-, not =, for assignment.**
```r
      stdev = fp0["mleSD", c(3, 1, 2)]
            ^
```
[R/inference_lmm_fdr_gpe.R:370:12:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L370) *style:* **Use <-, not =, for assignment.**
```r
      pds. = t(ml.out$pds.)
           ^
```
[R/inference_lmm_fdr_gpe.R:373:11:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L373) *style:* **Use <-, not =, for assignment.**
```r
      pds = fp0["cmest", c(3, 1, 2)]
          ^
```
[R/inference_lmm_fdr_gpe.R:374:13:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L374) *style:* **Use <-, not =, for assignment.**
```r
      stdev = fp0["cmeSD", c(3, 1, 2)]
            ^
```
[R/inference_lmm_fdr_gpe.R:375:12:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L375) *style:* **Use <-, not =, for assignment.**
```r
      pds. = t(Cov2.out$pds.)
           ^
```
[R/inference_lmm_fdr_gpe.R:378:20:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L378) *style:* **Use <-, not =, for assignment.**
```r
    colnames(pds.) = names(pds) = c("p0", "delhat", "sighat")
                   ^
```
[R/inference_lmm_fdr_gpe.R:378:33:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L378) *style:* **Use <-, not =, for assignment.**
```r
    colnames(pds.) = names(pds) = c("p0", "delhat", "sighat")
                                ^
```
[R/inference_lmm_fdr_gpe.R:379:18:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L379) *style:* **Use <-, not =, for assignment.**
```r
    names(stdev) = c("sdp0", "sddelhat", "sdsighat")
                 ^
```
[R/inference_lmm_fdr_gpe.R:396:7:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L396) *style:* **Use <-, not =, for assignment.**
```r
  z.2 = rep(NA, 2)
      ^
```
[R/inference_lmm_fdr_gpe.R:397:5:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L397) *style:* **Use <-, not =, for assignment.**
```r
  m = order(fd)[nx]
    ^
```
[R/inference_lmm_fdr_gpe.R:399:12:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L399) *style:* **Use <-, not =, for assignment.**
```r
    z.2[2] = stats::approx(fd[m:nx], x[m:nx], 0.2, ties = mean)$y
           ^
```
[R/inference_lmm_fdr_gpe.R:402:12:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L402) *style:* **Use <-, not =, for assignment.**
```r
    z.2[1] = stats::approx(fd[1:m], x[1:m], 0.2, ties = mean)$y
           ^
```
[R/inference_lmm_fdr_gpe.R:416:6:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L416) *style:* **Use <-, not =, for assignment.**
```r
  vl = list(fdr = ffdr, fp0 = fp0, Efdr = Efdr, cdf1 = cdf1,
     ^
```
[R/inference_lmm_fdr_gpe.R:419:13:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L419) *style:* **Use <-, not =, for assignment.**
```r
    vl$mult = EE
            ^
```
[R/inference_lmm_fdr_gpe.R:420:11:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L420) *style:* **Use <-, not =, for assignment.**
```r
  vl$call = call
          ^
```
[R/inference_lmm_fdr_gpe.R:431:5:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L431) *style:* **Use <-, not =, for assignment.**
```r
  N = length(z)
    ^
```
[R/inference_lmm_fdr_gpe.R:434:9:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L434) *style:* **Use <-, not =, for assignment.**
```r
      b = 1
        ^
```
[R/inference_lmm_fdr_gpe.R:435:12:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L435) *style:* **Use <-, not =, for assignment.**
```r
    else b = 4.3 * exp(-0.26 * log(N, 10))
           ^
```
[R/inference_lmm_fdr_gpe.R:436:10:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L436) *style:* **Use <-, not =, for assignment.**
```r
    xlim = c(median(z), b * diff(quantile(z)[c(2, 4)])/(2 *
         ^
```
[R/inference_lmm_fdr_gpe.R:439:9:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L439) *style:* **Use <-, not =, for assignment.**
```r
  aorig = xlim[1] - xlim[2]
        ^
```
[R/inference_lmm_fdr_gpe.R:440:9:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L440) *style:* **Use <-, not =, for assignment.**
```r
  borig = xlim[1] + xlim[2]
        ^
```
[R/inference_lmm_fdr_gpe.R:441:6:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L441) *style:* **Use <-, not =, for assignment.**
```r
  z0 = z[which(z >= aorig & z <= borig)]
     ^
```
[R/inference_lmm_fdr_gpe.R:442:6:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L442) *style:* **Use <-, not =, for assignment.**
```r
  N0 = length(z0)
     ^
```
[R/inference_lmm_fdr_gpe.R:443:5:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L443) *style:* **Use <-, not =, for assignment.**
```r
  Y = c(mean(z0), mean(z0^2))
    ^
```
[R/inference_lmm_fdr_gpe.R:444:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L444) *style:* **Use <-, not =, for assignment.**
```r
  that = N0/N
       ^
```
[R/inference_lmm_fdr_gpe.R:446:9:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L446) *style:* **Use <-, not =, for assignment.**
```r
    bet = c(d/s^2, -1/(2 * s^2))
        ^
```
[R/inference_lmm_fdr_gpe.R:447:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L447) *style:* **Use <-, not =, for assignment.**
```r
    aa = (aorig - d)/s
       ^
```
[R/inference_lmm_fdr_gpe.R:448:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L448) *style:* **Use <-, not =, for assignment.**
```r
    bb = (borig - d)/s
       ^
```
[R/inference_lmm_fdr_gpe.R:449:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L449) *style:* **Use <-, not =, for assignment.**
```r
    H0 = pnorm(bb) - pnorm(aa)
       ^
```
[R/inference_lmm_fdr_gpe.R:450:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L450) *style:* **Use <-, not =, for assignment.**
```r
    fa = dnorm(aa)
       ^
```
[R/inference_lmm_fdr_gpe.R:451:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L451) *style:* **Use <-, not =, for assignment.**
```r
    fb = dnorm(bb)
       ^
```
[R/inference_lmm_fdr_gpe.R:452:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L452) *style:* **Use <-, not =, for assignment.**
```r
    H1 = fa - fb
       ^
```
[R/inference_lmm_fdr_gpe.R:453:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L453) *style:* **Use <-, not =, for assignment.**
```r
    H2 = H0 + aa * fa - bb * fb
       ^
```
[R/inference_lmm_fdr_gpe.R:454:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L454) *style:* **Use <-, not =, for assignment.**
```r
    H3 = (2 + aa^2) * fa - (2 + bb^2) * fb
       ^
```
[R/inference_lmm_fdr_gpe.R:455:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L455) *style:* **Use <-, not =, for assignment.**
```r
    H4 = 3 * H0 + (3 * aa + aa^3) * fa - (3 * bb + bb^3) *
       ^
```
[R/inference_lmm_fdr_gpe.R:457:7:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L457) *style:* **Use <-, not =, for assignment.**
```r
    H = c(H0, H1, H2, H3, H4)
      ^
```
[R/inference_lmm_fdr_gpe.R:458:7:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L458) *style:* **Use <-, not =, for assignment.**
```r
    r = d/s
      ^
```
[R/inference_lmm_fdr_gpe.R:459:7:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L459) *style:* **Use <-, not =, for assignment.**
```r
    I = matrix(rep(0, 25), 5)
      ^
```
[R/inference_lmm_fdr_gpe.R:460:40:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L460) *style:* **Use <-, not =, for assignment.**
```r
    for (i in 0:4) I[i + 1, 0:(i + 1)] = choose(i, 0:i)
                                       ^
```
[R/inference_lmm_fdr_gpe.R:461:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L461) *style:* **Use <-, not =, for assignment.**
```r
    u1 = s^(0:4)
       ^
```
[R/inference_lmm_fdr_gpe.R:462:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L462) *style:* **Use <-, not =, for assignment.**
```r
    II = pmax(row(I) - col(I), 0)
       ^
```
[R/inference_lmm_fdr_gpe.R:463:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L463) *style:* **Use <-, not =, for assignment.**
```r
    II = r^II
       ^
```
[R/inference_lmm_fdr_gpe.R:464:7:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L464) *style:* **Use <-, not =, for assignment.**
```r
    I = u1 * (I * II)
      ^
```
[R/inference_lmm_fdr_gpe.R:465:7:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L465) *style:* **Use <-, not =, for assignment.**
```r
    E = as.vector(I %*% H)/H0
      ^
```
[R/inference_lmm_fdr_gpe.R:466:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L466) *style:* **Use <-, not =, for assignment.**
```r
    E1 = E[2]
       ^
```
[R/inference_lmm_fdr_gpe.R:467:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L467) *style:* **Use <-, not =, for assignment.**
```r
    E2 = E[3]
       ^
```
[R/inference_lmm_fdr_gpe.R:468:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L468) *style:* **Use <-, not =, for assignment.**
```r
    E3 = E[4]
       ^
```
[R/inference_lmm_fdr_gpe.R:469:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L469) *style:* **Use <-, not =, for assignment.**
```r
    E4 = E[5]
       ^
```
[R/inference_lmm_fdr_gpe.R:470:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L470) *style:* **Use <-, not =, for assignment.**
```r
    mu = c(E1, E2)
       ^
```
[R/inference_lmm_fdr_gpe.R:471:7:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L471) *style:* **Use <-, not =, for assignment.**
```r
    V = matrix(c(E2 - E1^2, E3 - E1 * E2, E3 - E1 * E2, E4 -
      ^
```
[R/inference_lmm_fdr_gpe.R:473:10:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L473) *style:* **Use <-, not =, for assignment.**
```r
    bett = bet + solve(V, Y - mu)/(1 + 1/j^2)
         ^
```
[R/inference_lmm_fdr_gpe.R:475:12:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L475) *style:* **Use <-, not =, for assignment.**
```r
      bett = bet + 0.1 * solve(V, Y - mu)/(1 + 1/j^2)
           ^
```
[R/inference_lmm_fdr_gpe.R:480:7:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L480) *style:* **Use <-, not =, for assignment.**
```r
    d = -bett[1]/(2 * bett[2])
      ^
```
[R/inference_lmm_fdr_gpe.R:481:7:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L481) *style:* **Use <-, not =, for assignment.**
```r
    s = 1/sqrt(-2 * bett[2])
      ^
```
[R/inference_lmm_fdr_gpe.R:486:9:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L486) *style:* **Use <-, not =, for assignment.**
```r
    mle = rep(NA, 6)
        ^
```
[R/inference_lmm_fdr_gpe.R:487:14:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L487) *style:* **Use <-, not =, for assignment.**
```r
    Cov.lfdr = NA
             ^
```
[R/inference_lmm_fdr_gpe.R:488:9:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L488) *style:* **Use <-, not =, for assignment.**
```r
    Cor = matrix(NA, 3, 3)
        ^
```
[R/inference_lmm_fdr_gpe.R:491:9:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L491) *style:* **Use <-, not =, for assignment.**
```r
    mle = rep(NA, 6)
        ^
```
[R/inference_lmm_fdr_gpe.R:492:14:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L492) *style:* **Use <-, not =, for assignment.**
```r
    Cov.lfdr = Cov.out = NA
             ^
```
[R/inference_lmm_fdr_gpe.R:492:24:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L492) *style:* **Use <-, not =, for assignment.**
```r
    Cov.lfdr = Cov.out = NA
                       ^
```
[R/inference_lmm_fdr_gpe.R:493:9:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L493) *style:* **Use <-, not =, for assignment.**
```r
    Cor = matrix(NA, 3, 3)
        ^
```
[R/inference_lmm_fdr_gpe.R:496:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L496) *style:* **Use <-, not =, for assignment.**
```r
    aa = (aorig - d)/s
       ^
```
[R/inference_lmm_fdr_gpe.R:497:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L497) *style:* **Use <-, not =, for assignment.**
```r
    bb = (borig - d)/s
       ^
```
[R/inference_lmm_fdr_gpe.R:498:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L498) *style:* **Use <-, not =, for assignment.**
```r
    H0 = pnorm(bb) - pnorm(aa)
       ^
```
[R/inference_lmm_fdr_gpe.R:499:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L499) *style:* **Use <-, not =, for assignment.**
```r
    p0 = that/H0
       ^
```
[R/inference_lmm_fdr_gpe.R:500:7:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L500) *style:* **Use <-, not =, for assignment.**
```r
    J = s^2 * matrix(c(1, 0, 2 * d, s), 2)
      ^
```
[R/inference_lmm_fdr_gpe.R:501:8:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L501) *style:* **Use <-, not =, for assignment.**
```r
    JV = J %*% solve(V)
       ^
```
[R/inference_lmm_fdr_gpe.R:502:9:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L502) *style:* **Use <-, not =, for assignment.**
```r
    JVJ = JV %*% t(J)
        ^
```
[R/inference_lmm_fdr_gpe.R:503:10:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L503) *style:* **Use <-, not =, for assignment.**
```r
    mat2 = cbind(0, JVJ/N0)
         ^
```
[R/inference_lmm_fdr_gpe.R:504:10:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L504) *style:* **Use <-, not =, for assignment.**
```r
    mat1 = c((p0 * H0 * (1 - p0 * H0))/N, 0, 0)
         ^
```
[R/inference_lmm_fdr_gpe.R:505:9:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L505) *style:* **Use <-, not =, for assignment.**
```r
    mat = rbind(mat1, mat2)
        ^
```
[R/inference_lmm_fdr_gpe.R:506:7:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L506) *style:* **Use <-, not =, for assignment.**
```r
    h = c(H1/H0, (H2 - H0)/H0)
      ^
```
[R/inference_lmm_fdr_gpe.R:507:10:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L507) *style:* **Use <-, not =, for assignment.**
```r
    matt = c(1/H0, -(p0/s) * t(h))
         ^
```
[R/inference_lmm_fdr_gpe.R:508:10:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L508) *style:* **Use <-, not =, for assignment.**
```r
    matt = rbind(matt, cbind(0, diag(2)))
         ^
```
[R/inference_lmm_fdr_gpe.R:509:7:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L509) *style:* **Use <-, not =, for assignment.**
```r
    C = matt %*% (mat %*% t(matt))
      ^
```
[R/inference_lmm_fdr_gpe.R:510:9:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L510) *style:* **Use <-, not =, for assignment.**
```r
    mle = c(p0, d, s, diag(C)^0.5)
        ^
```
[R/inference_lmm_fdr_gpe.R:512:10:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L512) *style:* **Use <-, not =, for assignment.**
```r
      sd = mle[4:6]
         ^
```
[R/inference_lmm_fdr_gpe.R:513:10:](https://github.com/dirmeier/knockout/blob/b192cdec53eb5f7c4e0466cec5dfa84040461567/R/inference_lmm_fdr_gpe.R#L513) *style:* **Use <-, not =, for assignment.**
```r
      Co = C/outer(sd, sd)
         ^
```


poor little guy!


Np bro


jesli jest zakomentowane to znaczy ze jest zbedne i powinno byc usuniete


Updated updater? GENIUS


This change failed because the PIMPL idiom implementation has become corrupted. Reverted change and fixing PIMPL idiom.


**BIRT**


euystarcza 3 wartosci


Bluemix [toolchain](https://console.ng.bluemix.net/devops/toolchains/796793bb-fc0f-4fe6-99f9-f7bd31c31a31 "serverquiz2"): [Delivery Pipeline](https://console.ng.bluemix.net/devops/pipelines/c96aaaf8-b52b-4774-a3ca-8aaefd6cb092 "serverquiz2") deployed this commit to [test](https://console.ng.bluemix.net/apps/58674aad-b12e-47ae-ad6d-4a98bcaefca8 "ibm:yp:us-south:kalle.kindvall@ibm.com:test")


Here is an error - must be "Authorization" instead of "Autorization";


Hi @tmalaska ,

Apologies in advance if this is irrelevant or not the right place or way to do this and causes any inconvenience.

I am currently looking for a Java application / library that can convert an EBCDIC formatted file (from Mainframe) into standard ASCII format. I came across this code base [CopybookInputFormat] and found it really interesting. I was wondering if this application also handles packed / compressed fields (COMP-3) conversion and copybooks?

Awaiting a prompt response.

Thanks in advance.

Kind Regards,
Harish


TeamCity Foo Bar :: Build [Build 7](http://localhost:8111/viewLog.html?buildId=7&buildTypeId=FooBar_Build) is now running


new image


TeamCity Foo Bar :: Build [Build 7](http://localhost:8111/viewLog.html?buildId=7&buildTypeId=FooBar_Build) outcome was **SUCCESS**
Summary: Running Build time: 00:00:23


Don't do this


this doesn't do anything cause the MLP class eats the exception at a lower level


czy aby na pewno 114 linia ma jakis sens? czy w ogole dojdzie do jej wykonania?


Thanks LGTM


My projects 28/03/2017


Whenever we make changes to _**package.json**_ we want to run, in the console, the following line:
`npm i`
or
`npm install`
especially if there are additions, so npm would get the chance to update the dependencies found in the _**node_modules**_ folder


not sure that this function can used with a proxy http://stackoverflow.com/questions/22967084/urllib-request-urlretrieve-with-proxy

curl is not a good soluce ?


aman Mesut'a dikkat :stuck_out_tongue:

![200w](http://68.media.tumblr.com/tumblr_mdlnnhwXcC1ry8teo.gif)


fix


bu gif olayı da iyimiş


As discussed, I would remove this if ... and do:

computed := ScramblePassword(salt, []byte("bad"))
if bytes.Compare(authResponse, computed) == 0 {
   return nil, sqldb.NewSQLError(ERAccessDeniedError, SSAccessDeniedError, "Access denied for user '%v'", user)
 }
 return &NoneGetter{}, nil		  	return &NoneGetter{}, nil


LarryPreRC (evanweaver) - x86_64-MacOS-10.10-clang: Build Failed

![Build Badge](http://img.shields.io/badge/build%20status-failing-red.png) ![Test Badge](http://img.shields.io/badge/tests%20passed-NA-red.png)


dnv


ere I would just do: if password == "bad" { return error }


Sorry... actually we should store the whole `project` object in the context store, e.g.: `contextStore.project = this.props.media.project;`


@smalyshev how are you?

I'm covering and debugging the bcmath functions and i can't see when this function (`split_bc_num`) it should be called.

Even with gdb in bug72093.phpt (and bcpowmod.phpt file also) the num->n_refs is always <= 1 exiting with `return num;` instead of` return newnum;`

For me appears be a dead code.

I really can't see. Could you explain the case to me?

Thanks!


develop (evanweaver) - x86_64-MacOS-10.10-clang: Build Failed

![Build Badge](http://img.shields.io/badge/build%20status-failing-red.png) ![Test Badge](http://img.shields.io/badge/tests%20passed-NA-red.png)


Thank you!


We should not change the current store object directly... start it as an empty hash, because the `CheckContext` library will know to keep the existing values. So, replace by this: `let contextStore = {};`


I could be wrong but I think X_IG_Capabilities has also changed.


TeamCity Opentrons Api :: Build [Build 43](http://208.52.190.133:8111/viewLog.html?buildId=43&buildTypeId=OpentronsApi_Build) is now running


nice


Starting development today :)

1. Create button: Done
2. Create points system: Works but needs more work
3. Get button to change positions on screen: Not started
4. Add cool animations: Not started
5. Add a leaderboard system in PHP:  Not started
6. Release: Not finished
7. Update: Not released
8. Make people happy :+1:: Not released


AWSConfig has been defined since v0.0.1. I don't know why it's not working on Travis, probably a v0.4/v0.5/compat/string issue of some sort. I suspect it will work after https://github.com/JuliaLang/METADATA.jl/pull/8534 is merged.


Quantity is an integer instead of a string maybe? Use a numerical dropdown instead of a label maybe? Cast using `str(quantity)` maybe?


AddChecksumReport (JasonGlazer) - x86_64-Linux-Ubuntu-14.04-gcc-4.8: Tests Failed (2044 of 2530 tests passed, 91 test warnings)

 * 577 tests had: EIO diffs.
 * 563 tests had: ERR diffs.
 * 486 tests had: Table big diffs.
 * 1 test had: AUD diffs.
 * 1 test had: ESO small diffs.
 * 1 test had: MTD diffs.

![Build Badge](http://img.shields.io/badge/build%20status-passing-green.png) ![Test Badge](http://img.shields.io/badge/tests%20passed-80.79%25-red.png)


Doesn't that seem to be fairly brutal?  I completely understand that this is newly needed, but I am afraid that this will try to evaluate way too many things.


@sueridgepipe can you please check if this fixes your multiple listing of video-drivers?
The change is Included in package **manjaro-architect-dev-0.8.5.r12.ge0e276f**


Cool - so index.html sits under the wwwroot directory on a Windows server....... so on a mobile phone, I reference this by

http://server-ip-addr:8080/index.html  do I??

Of course the pre requisite is that the WebSock server has to be started right?


Faktycznie, przy 111 linijce będzie już wyjątek.


Woohoo! :tada: `1.0.0-beta.19+3c1882d` now has the full set of 8 automatically-built and published snapshot builds https://resin-nightly-downloads.s3.amazonaws.com/
:smile: :tada: :+1:


I'm not sure but, looking at https://guerrerocarlos.github.io/WikiP2P.org/ I think most of the replacements broke the content. It should be WikiP2P instead of WikipP2P, right?

The link to GitHub is also broken, it links to <https://github.com/guerrerocarlos/WikipP2P> instead of <https://github.com/guerrerocarlos/WikiP2P.org>.


Oops, forgot to note that goggles no longer provide protection.


Why pipeline at all? Maybe something like cmdline_utils?


I see it listed under the `export` line but not actually defined in pre-0.1.0 versions of AWSCore


use subtraction here


I don't think this changes what's evaluated, because `value` is here invoked on the input to `Simplify`, which used to contain `sum` and `product` but now (after e08b2493dd3c1941606178aea2c01a312cac0f13) contains `Sum` and `Product`. I don't know that Language.Hakaru.Pretty.Maple generates anything else inert.


Vale, me lo bajo a local y en cuanto pueda te comento


AddChecksumReport (JasonGlazer) - x86_64-Linux-Ubuntu-14.04-cppcheck-1.61: OK (0 of 0 tests passed, 0 test warnings)

![Build Badge](http://img.shields.io/badge/build%20status-passing-green.png)


No Int then?  That's my biggest worry.


@quozl This causes ValueError and crashes sugar-runner :(
how about using try...except for this?


don't do this any more


Hmmm, is the:
```
node-pre-gyp ERR! UNCAUGHT EXCEPTION
node-pre-gyp ERR! stack Error: Unknown Runtime: 'electron'
```
anything to worry about? :confused:


`grep -w Int haskell/Language/Hakaru/Pretty/Maple.hs` gives nothing.

If the Hakaru program to be simplified contains `integrate` then we would produce `int` and it would get evaluated. But that's nothing new and it's distinct from the integrals generated by `toLO`. After all, the call to `toLO` occurs after this call to `value`.


So this seems safe enough.  Thanks.


it doesnt add the element which is adressed as other's value
`other->next->prev = list;`
`other->next = list->next;`
`list->next->prev = other;`
`list->next = other->next;`
this is my suggettion


Ok, it looks like the `AWSConfig` typealias was added here https://github.com/samoconnor/AWSCore.jl/commit/94880ce9f5e3440f759eb1c7a8a1d3f85d53ca9f
In any case, given that I don't currently intend to support any configuration other than "the lastest version of all AWS* packages", I don't see a practical issue here. Travis will work again when JuliaLang/METADATA.jl#8534 is merged.


Not related to your change, but lookup to a specific location is a very bad way to benchmark random access.
It doesn't demonstrate the common problem of having cold memory reads.


Yes, you're right.  I'll fix this.


Yes, the name is very misleading. Nevertheless, I suppose to rename it AFTER the installer implementation. I want to finish with file moving ASAP.


ping @julienrf, I think you could benefit from taking benchmarking code from here:
https://github.com/DarkDimius/DelayingArrays/blob/rewrite/src/main/scala/me/d_d/delaying/Benchmarks.scala


this simply benchmarks boxing...


Sometimes when I open this assembly, it complains that some of the mates don't work (stuff with the baseplate alignment). Just rebuild the assembly. For whatever reason, that fixes it. 💩


Does the server function fine without implementing anything new was there no edits to the packets structures?


ty


TeamCity Architecture Team :: Java Platform :: otj-kafka :: otj-kafka [Build 13](http://teamcity.otenv.com/viewLog.html?buildId=6103752&buildTypeId=ArchitectureTeam_JavaPlatform_OtjKafka_OtjKafka) is now running


TeamCity Architecture Team :: Java Platform :: otj-kafka :: otj-kafka [Build 13](http://teamcity.otenv.com/viewLog.html?buildId=6103752&buildTypeId=ArchitectureTeam_JavaPlatform_OtjKafka_OtjKafka) outcome was **SUCCESS**
Summary: Running Build time: 00:00:42


![](https://github.trello.services/images/mini-trello-icon.png) [[US-011][Epic-02] Eliminar proveedor](https://trello.com/c/42hSA5Od/22-us-011-epic-02-eliminar-proveedor)


Would you reject PR's that added lower bounds for this?


Was this supposed to benchmark random access?  I read it as a benchmark of non-random indexing.  I absolutely agree that a random indexing benchmark would look quite different.


No, your problem is with `sugar-build`, because it is out of date and has not been changed to include the Python GI API for WebKit2 with a version number of 4.0.  Please fix `sugar-build`.

Also, do not forget that `sugar-build` is a developers' emulation environment, and that a Sugar native desktop is the first-class environment where Sugar must work.  No child is expected to use `sugar-build` to experience Sugar.


The files are the file format that we might be using. The code that I have completed so far just reads the transaction history and displays the information


Lacy Morrow has now merged my PR for album-art.  Do you want me to do a PR for the above?


Thanks, will do.  May I submit this with bounds [-3, 1] to fix:

```
$ ./stockfish bench threecheck
Stockfish 280317 64 BMI2 by T. Romstad, M. Costalba, J. Kiiski, G. Linscott

Position: 1/1
info depth 1 seldepth 1 multipv 1 score cp 102 nodes 20 nps 10000 tbhits 0 time 2 pv d2d4
info depth 2 seldepth 2 multipv 1 score cp 96 nodes 52 nps 26000 tbhits 0 time 2 pv e2e4 b7b6
stockfish: position.cpp:1040: bool Position::gives_check(Move) const: Assertion `color_of(moved_piece(m)) == sideToMove' failed.
Aborted (core dumped)
```

or do you think a simpler (non-functional) fix is possible?


zastanow sie nad ryzykiem zwiazanym z anyInt(), anyInt()


No.
I see that the version dependancy thing has benefits.
This is simply a mater of prioritisation of effort.
It is extremely time consuming to make small changes to packages after a METADATA.jl pull request has been submitted because the PkgDev tools don't provide a way to update the tags and the PR.


Nicely done! You converted the value to lowercase so your comparisons can be case insensitive. I also like that you chained the function all on one line.


jaki sens ma rzucanie wyjatku przy dzieleniu przez 4?


Because `sugar-build` is out of date, frequently does not work, and nobody seems to want to fix it, I've made sure there is an alternative developers' environment documented; [packaged syle](https://developer.sugarlabs.org/dev-environment.md.html#setup%20a%20development%20environment%20-%20packaged%20style).


see https://github.com/attobot/attobot


TeamCity Architecture Team :: Java Platform :: otj-kafka :: otj-kafka [Build 14](http://teamcity.otenv.com/viewLog.html?buildId=6103774&buildTypeId=ArchitectureTeam_JavaPlatform_OtjKafka_OtjKafka) is now running


TeamCity Architecture Team :: Java Platform :: otj-kafka :: otj-kafka [Build 14](http://teamcity.otenv.com/viewLog.html?buildId=6103774&buildTypeId=ArchitectureTeam_JavaPlatform_OtjKafka_OtjKafka) outcome was **FAILURE**
Summary: Exit code 1 (new) Build time: 00:00:08


m


I almost thought your function was broken but I believe you just misspelled sydney in this if statement.


This is very interesting.


Something you could have done was clear out the input after the user submitted the form.


Finally someone writes comments in their code. Well done.


Correct! Used to be different in Swift 3.0 :/


*fixed :)


One thing to keep track of here is that once we addClass that class will remain on the background. So if I entered a new value in the input and submitted the form it'll only display the background image that was declared later. We should be sure to remove all of the classes first and then addClass.


Do want to produce a batch of boards with pick & place?
Please let me know, in case you do - I still might want to have a few too...


though that's designed to do a single package at a time. it's also perfectly fine to modify the metadata PR branch contents in place


Good logic here. In current UX it's usually better to apply some style or add some html message as opposed to alert.


I struggled forever trying to figure out how to remove the previous class entered.


testy nie przechodza


AddChecksumReport (JasonGlazer) - x86_64-Linux-Ubuntu-14.04-gcc-4.8-UnitTestsCoverage-Debug: OK (1296 of 1296 tests passed, 0 test warnings)

![Build Badge](http://img.shields.io/badge/build%20status-passing-green.png) ![Test Badge](http://img.shields.io/badge/tests%20passed-100.0%25-green.png) ![Coverage Badge](http://img.shields.io/badge/coverage%20status-37.69%25-green.png)


This addon breaks the building of most phpPackages with missing php.h errors (ie. imagick, xdebug) sessions.h (ie. memcached).


zastanow sie nad ryzykiem zwiazanym z anyInt(), anyInt()


Whenever we make changes to _**package.json**_ we want to run, in the console, the following line:
`npm i`
or
`npm install`
especially if there are additions, so npm would get the chance to update the dependencies found in the _**node_modules**_ folder


still used in test/runtests.jl


Yes but I would suggest discussing with him how to add artist size. What do you think?


This can be removed. Leftover.


![](https://github.trello.services/images/mini-trello-icon.png) [Создать свёрточный спайковый слой на Python](https://trello.com/c/1V8gfP48/22-python)


Taglibs can be removed. Got these from an example i got online.


Good point. Adding it.


![](https://github.trello.services/images/mini-trello-icon.png) [Создать спайковый subsampling слой на Python](https://trello.com/c/sPDvPige/26-subsampling-python)


Thanks.


![](https://github.trello.services/images/mini-trello-icon.png) [Создать спайковый полносвязный слой на Python](https://trello.com/c/VfDvumtl/27-python)


Why the diff is like this… I don't know what you change


The following doc(s) have been deployed to the [audittaxon](https://audittaxon-static-docs.pantheonsite.io/docs) Multidev environment:
- [docs/required-reading](https://audittaxon-static-docs.pantheonsite.io/docs/required-reading)
- [source/_partials/topics/get-started.html](https://github.com/pantheon-systems/documentation/commit/636aa00a3941ad306491d0633748de065d1fc770/source/_partials/topics/get-started.html)


ten test nie wnosi nic nowego i jest zbedny w zwiazku z tym


I think this is incorrect. Looking at [the spec](https://docs.google.com/document/d/1cl8N1bmkTdIpPLtnlzbBSFAdUeyNo5fwfHbHU7VRNWY/edit#), the smallest LZ4 frame can be 11 bytes long (4 magic number + 3 frame descriptor + 4 EndMark).

Also in https://github.com/lz4/lz4/issues/108#issuecomment-135538925 @Cyan4973 spoke of "the **maximum** size of frame header being 15 bytes", not the minimum.


if you just do removeClass(); and leave it empty it'll remove all classes. So you don't have to logically figure out what the class was.

If you did want to figure out what the class was and then remove it you could do the following:
`var prevClass = $('body').attr("class");
$('body').removeClass(prevClass);`


Although I do disagree with you on this (in terms of readability) I will follow your advice.


The second approach assumes there isn't more than one class, which if we are removing them correctly would be an accurate assumption.


Good way to sanitize our input.


@ping i have to check it. Im making a server (90% done) that will extract all information automatically. And it will be as easy as do a GET request to my server and you'll get all the info :)


Yep, that's it.


attr() is nice because we don't have to remove the previous classes we added. It wouldn't be as great if the body tag had multiple classes applied to it because we'd wipe out all of them. In this case it's the proper way to set this.


Thanks for the feedback. I had a pretty tough time with this assignment.


I already told him that I found sending 'null' worked, but I have now asked him to confirm that it should cause no problems.  See [https://github.com/lacymorrow/album-art/issues/6](https://github.com/lacymorrow/album-art/issues/6) .


Good job making sure to remove all the potential classes that might have been applied.


Good to see some comments in our javascript code this week.


Quickest way to just remove all classes from an element. Good find.


Just realized that i should've done this through the `style.scss` file (The css i added). but i couldn't get `gulp` to generate the css files. Maybe you could add more instructions on this @gbozee


This one was a mistake of mine. Sorry.


Update


You sanitized the user input all in one line. We call this chaining methods and it's useful in allowing us to make multiple changes with less typing. Always important.


I always forget this one :+1:


You always do a great job of finding new functions and methods to use and taking the project beyond just what is expected. Impressive work as usual.


I was not aware that SEE is also used for moves of the side that is not to move, but now I see it seems to be used for capture evasions, so please go ahead testing it as a simplification (I suggest [-10, 5] bounds).


Regular expressions! Definitely the way to go when dealing with complicated sanitizations.


是在这里记录吗。。


Maybe "QGIS Authentication"?


Removed


done


You did very well. I'm sure it can feel like a struggle at times but making mistakes is pretty important when you start coding because it's so much faster to correct those mistakes later.


No need to CC in the actual commit contest. Just in the pull request 😄

...I'm getting double emails from github


![](https://github.trello.services/images/mini-trello-icon.png) [asdasd](https://trello.com/c/N9zHAqjo/2-asdasd)


I have no idea how this got overwritten. I will add it back. Sorry @piamancini !


listo


Close #3


Aplicação WEB

xoxoxo


@OriRoth Alright, we can work on it today. Doron is not in the project already...


J'ai l'impression que la couleur des indices marche pas sur l'affichage graphique


Getting rid of special characters can be important because some database languages don't filter those on their own and you could be exposing your php to attack because a user could actually type in a command in the input. What's also useful is to find a library where you can use pre-built sanitization or validation functions. http://parsleyjs.org/ is an example.


@cam586 this will likely break for me when i pull. I install `robot_ws` to my home directory. I think in bash.setup we should define an environment variable called `$ROBOT_WS_HOME` and here replace `path2dir` with `os.getenv('ROBOT_WS_HOME')`.  Can you do this and test?


AddChecksumReport (JasonGlazer) - x86_64-Linux-Ubuntu-14.04-gcc-4.8-IntegrationCoverage-Debug: Tests Failed (1598 of 1897 tests passed, 0 test warnings)

![Build Badge](http://img.shields.io/badge/build%20status-passing-green.png) ![Test Badge](http://img.shields.io/badge/tests%20passed-84.24%25-red.png) ![Coverage Badge](http://img.shields.io/badge/coverage%20status-59.94%25-red.png)


AddChecksumReport (JasonGlazer) - x86_64-Linux-Ubuntu-14.04-custom_check: OK (0 of 0 tests passed, 0 test warnings)

![Build Badge](http://img.shields.io/badge/build%20status-passing-green.png)


böse


@ping there you go

```php
<?php

$magic; // magic int ;)
$bytes = unpack("C*", pack("V", $magic));
$string = implode(array_map("chr", $bytes));
$igCapabilities = mb_convert_encoding(base64_encode($string), 'US-ASCII');
```

Result: `3boBAA==`

Regards


*maps


@cam586 see my other comment on this if you've not already


d


👍 with the indentation


LarryPreRC (evanweaver) - x86_64-Linux-Ubuntu-14.04-clang-3.5: Build Failed

![Build Badge](http://img.shields.io/badge/build%20status-failing-red.png) ![Test Badge](http://img.shields.io/badge/tests%20passed-NA-red.png)


very close...`800` is actually the Extra Bold


@cam586 Can you also keep driver file names consistent, i.e. append with `_driver.py` ^_^ I like how this project is coming along!


So, one thing to be aware of...if you add `font-family: 'Open Sans', sans-serif;` to the `body` selector in your css, that font will be inherited throughout the DOM and you won't have to specify it throughout your CSS


clone


None to existing packets, as far as I know, some new packets were added.


Great! Thanks for your efforts, I'll do it asap


hahaha xD !


Is this an example of where you intentionally changed the font-size?  I just notice that the design spec says `24px`.  Overall though, great work matching the design spec!


¿Qué?


El archivo database.php no se tiene en cuenta como parte de la corrección del error #5


These are all the region files, when working with them I think they can be ordered by year to make searching easier


Enlève test sémaphore mais sémaphore est quand même créé ?


We already have a default witness checker in Sema - can you use the results of that?


I don't like this change, as described in my other comment near the bottom of here https://github.com/scala/collection-strawman/pull/49/files/51e4f4a3cccba980e7ff796c4e5a6b9ebb4490ce.

Use cases where this is bad:

1. Add 1000 elements
2. clear
3. append 101 elements, removeFirst, append 101, removeFirst, for a total of 10 times.

The user intends to re-use the fully grown size in the example above, but it auto-shrinks.  Similarly:

1.  create a buffer with initial size 100000
2. add elements one at a time, occasionally removing one.

The user expects to pre-allocate a buffer large enough for their use case, but it shrinks itself defeating the purpose of pre-allocation.

I can think of more, but the essence of my feelings here is that automatic shrinking is somewhat incompatible with `clear` and up-front pre-allocation of an expected size.

It also appears that if you create one of these, its default size will be 8, and so if you did:

    val b = ArrayDeque[Int]()
    b += 1
    b.removeFirst

It would shrink it right after creating it.

Additionally, I'm not sure where `size` is defined, but I assume it is equivalent to `length`.  There are many cases where `size` is called multiple times from within the same method, which means it will re-compute the value.  There may be opportunities to calculate it once within a method and re-use the computation.  Its not all that expensive however, so consider tweaking that after benchmarks are up and running.


LarryPreRC (evanweaver) - x86_64-Linux-Ubuntu-14.04-cppcheck-1.61: Build Failed

![Build Badge](http://img.shields.io/badge/build%20status-failing-red.png)


Nice work using the technique we covered to vertically center a block element! This is definitely a great skill to have in your toolkit.  How might you achieve a similar look using padding like we saw yesterday?


Great use of IDs throughout your code!


develop (evanweaver) - x86_64-Linux-Ubuntu-14.04-clang-3.5: Build Failed

![Build Badge](http://img.shields.io/badge/build%20status-failing-red.png) ![Test Badge](http://img.shields.io/badge/tests%20passed-NA-red.png)


You might want to try what I did for the jekyll-asciidoc project. See https://github.com/asciidoctor/jekyll-asciidoc#jekyll-asciidoc-plugin-powered-by-asciidoctor


A supprimer


I see where you are coming from using the `ul li` pattern here, but I would suggest keeping this is a single link, something like this:

`<a href="#"><h1>Relaxr</h1></a>`


Pourquoi ?


There is no such thing as "standard trunk", violates DDD. There are trunks,
hatchbacks, beds, etc
On Tue, Mar 28, 2017 at 4:24 PM نور الهدى <notifications@github.com> wrote:

> maybe a better method would be : public StandardTrunk getStandardTrunk()
>
> —
> You are receiving this because you were mentioned.
> Reply to this email directly, view it on GitHub
> <https://github.com/anthonykulis/automobile/commit/f82fd384c6f3769bbb8b8df4e748547360902beb#commitcomment-21528665>,
> or mute the thread
> <https://github.com/notifications/unsubscribe-auth/AA-8MddfS8JRccCLDgqu-B77yCJtL9FWks5rqXqdgaJpZM4MsNpD>
> .
>


I haven't been keeping up with the development. Do you mind explaining why this was changed to `json.RawMessage`?


Utile ? On suspend déjà la tâche si en mode auto non ?


We have to update shipController if we want to execute lua scripts by several instructions.


develop (evanweaver) - x86_64-Linux-Ubuntu-14.04-cppcheck-1.61: Build Failed

![Build Badge](http://img.shields.io/badge/build%20status-failing-red.png)


@brancz I hesitated to open a new issue but which part of this repo is generating this metric? I saw that cAdvisor may generate but it is not used by this repo, isn't it?


Does it also give us witness in constraint extensions that we are not sure apply? Like the test in https://github.com/apple/swift/commit/3ad7df273f4644042b7c758580a2b7429ef14acb


what the hell is this?


debug output.


In MRPT 2.0 I was thinking of replacing this sort of things with optional. That way it's either some PTG info or none, which would serialize to the nullptr for now. It's a little bit safer than a pointer.

https://github.com/mapbox/variant/blob/master/include/mapbox/optional.hpp
http://en.cppreference.com/w/cpp/utility/optional


@bdheath Which Python?


@codeanticode Sorry to bother with this question, but are these changes related to the Version 4.0-beta5 of the Android mode or something else?


Faudrait utiliser les if == pdpass aussi non ?


The base branch must also include the renaming patch so that both versions work with cutechess.


0.171 second for corrector: 2


J'ai l'impressoin que cette tâche tourne tout le temps non ? Il faudrait qu'elle se bloque et soit débloquée par l'interrupt quand les données arrivent.


a


Are you sure?


注意要成对出现


Move this to a javascript file of its own #


Not able to access.


TeamCity WeSay1.5 :: wesay1.6-win32-continuous [Build 1.6.11.1bbc6fc943c140da816d790a174f67285fe01009](http://build.palaso.org/viewLog.html?buildId=86939&buildTypeId=bt170) outcome was **SUCCESS**
Summary: Tests passed: 1393, ignored: 31 Build time: 00:05:48


Updated comment


terminar tarea ver como modificar sino mandar en esta semana


Why should they create their own virtual box? It might be good to offer some reasons whey they might like to create their own. Maybe a we can create a page in the wiki for that/


testing.


I reported this bug 5 months ago:
"User changePassword function throws always ErrorException #340"... but I was ignored!


good!


Add timeline style board layout #102


Where did `meta` and `ore` come from? I don't see them on the Sponge organization.


PrepFor87 (Myoldmopar) - x86_64-MacOS-10.9-clang: Tests Failed (2007 of 2490 tests passed, 76 test warnings)

 * 559 tests had: EIO diffs.
 * 559 tests had: ERR diffs.
 * 483 tests had: Table big diffs.
 * 1 test had: AUD diffs.
 * 1 test had: ESO small diffs.
 * 1 test had: MTD diffs.

![Build Badge](http://img.shields.io/badge/build%20status-passing-green.png) ![Test Badge](http://img.shields.io/badge/tests%20passed-80.6%25-red.png)


@klehman-rally
Hi, I wonder why the httpclient specified version to be 2.6.0.1, can it be >=2.6.0.1? I'm trying to use the latest rally_api, but met httpclient version compatible problem, since other gem require httpclient  to be ~>2.7


back


> The key here is "sub-grapheme".

Yes, that's exactly the statement I'm asking about.

> A grapheme can be composed of multiple normalization sequences.

Sure, it *can be*. The question is whether it is _required_ to be a composition of one or more such sequences, or whether the grapheme boundary can fall between normalization sequence boundaries.

> hasBoundaryBefore/After is not suitable for determining grapheme boundaries.

I am not suggesting that it is ever _sufficient_ to check hasBoundaryBefore/After in making a grapheme boundary determination. However, if normalization sequences never cross grapheme boundaries, that would make an affirmative answer from hasBoundaryBefore/After a _necessary condition_ of being a grapheme boundary, assuming all normalization boundaries are required to be detected by one of hasBoundaryBefore/After.

> For example, all values less than 0x300 have boundaries before them, but CR-LF is a single grapheme. Or are you asking whether all grapheme boundaries are also normalization boundaries?

That is exactly what I'm asking, and exactly what your statement about normalization segments being sub-grapheme seems to imply.  If it doesn't mean that, what does it mean?


Trying Coment


@jpatters changed `This is so that when the database is migrated, the squashed migration will not run. ` to `This prevents the squashed migration from running when the database is migrated.`


AH! Typo!


@marcelveldt that is SO weird!  I was just reading up more about how background image loading works, performance, etc and then saw a few places in the skin where it could likely make an impact and then I see this commit like you or me read the others mind - LOL

btw I noticed and liked the change where you can just make out the widgets now with the transparency while updating.

oh and I have not got around to looking into the actual cause of a tiny thing I noticed in the netflix view where the focused panel's label is "warped" - I am thinking it is likely just a texture scaling issue for the focus zoom due to a mixture of thing like font size, screen size, etc and probably no one thing will prevent it.

be well marcel :)


@jpatters fixed a couple of grammar issues and banner and social media images. This is good to publish. Good job!


read.md


we use dashes to separate work in files


"Metadata config option"?


That's not the point.  Presumably there exist scalars for which hasBoundaryAfter returns true, that may sometimes be followed by a scalar for which hasBoundaryBefore does not return true.  For example (I'm guessing here), a ZWNJ followed by a combining character. Failing to detect such a boundary potentially means normalizing a longer stretch of scalars, where normalizing a single scalar would be a no-op. Am I missing something?


@matlink , I don't really like the decision to make "args" a mandatory constructor argument, because everytime you create a instance you have to provide a full list. This breaks the api, everytime you change the cli args, which makes software that relies on gplaycli more annoying to maintain and makes it effectively unusable from a python shell.
An optional "args" argument and sane defaults would work better, i think.


Final update


ssmc


[]aaa


html5移动端重力与触摸代码，云朵效果，canvas可撕裂布料，页面预加载，极光效果，html粒子效果的文字动态特效等


## In the first place, we need to make sure whether the programmer has input a matrix
## If not, a message will show and notice to input a matrix

## Then, we can start to compute a matrix's inverse. The following 2 functions can help check
## whether this inverse had already been made.
## If so, one of these functions search this inverse in the cache and return the inverse.
## If not, the same function will calculate the inverse.

## This function creates a special "matrix" object, which is a list containing a function to
## set the value of the matrix
## get the value of the matrix
## set the value of the inverse
## get the value of the inverse


TT


## This function computes the ivnerse of the special "matrix" returned by the
## makeCacheMarix above.
## If the inverse matrix has already been calculated, then the CacheSolve should
## retrieve the inverse from the cache.


:heart:


PrepFor87 (Myoldmopar) - x86_64-Linux-Ubuntu-14.04-gcc-4.8: Tests Failed (2044 of 2530 tests passed, 77 test warnings)

 * 563 tests had: EIO diffs.
 * 563 tests had: ERR diffs.
 * 486 tests had: Table big diffs.
 * 1 test had: AUD diffs.
 * 1 test had: ESO small diffs.
 * 1 test had: MTD diffs.

![Build Badge](http://img.shields.io/badge/build%20status-passing-green.png) ![Test Badge](http://img.shields.io/badge/tests%20passed-80.79%25-red.png)


Hi

Unable to login using Facebook today, it was working before. I was in v3.0.3, so I updated the version to v3.0.4 to check if its working, still the same issue.

Error -
**[Client error: `GET https://graph.facebook.com/v2.8/me?access_token=&fields=name,email,gender,verified,link&appsecret_proof=...` resulted in a `400 Bad Request` response:**

I noticed the access_token is missing. So far what I found is the access token response format return from Facebook looks wrong for me. Please advice on this

Regards,
Saumini


sorry
please modify "def get_accuracy(self, x_test, y_test, training = False)" => "training = True"


Urgh, copy/paste. Yes. Will do that. Good catch. Thanks.


Updating to v3.0.4 solved the issue, took few minutes to sync across the live servers. Sorry for the inconvenience.


PrepFor87 (Myoldmopar) - x86_64-Linux-Ubuntu-14.04-cppcheck-1.61: OK (0 of 0 tests passed, 0 test warnings)

![Build Badge](http://img.shields.io/badge/build%20status-passing-green.png)