<html><head><meta http-equiv="Content-Type" content="text/html charset=utf-8"></head><body style="word-wrap: break-word; -webkit-nbsp-mode: space; -webkit-line-break: after-white-space;" class=""><div class="">Hi Arun,</div><div class=""><br class=""></div><div class="">Of course. Thanks for pointing that out.</div><div class=""><br class=""></div><div class="">Tom</div><br class=""><div><blockquote type="cite" class=""><div class="">On 22 Aug 2015, at 11:11, Arunkumar Srinivasan <<a href="mailto:aragorn168b@gmail.com" class="">aragorn168b@gmail.com</a>> wrote:</div><br class="Apple-interchange-newline"><div class=""><div id="bloop_customfont" style="font-family: Helvetica, Arial; font-size: 13px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; margin: 0px;" class="">v1.9.5 <a href="https://github.com/Rdatatable/data.table" class="">https://github.com/Rdatatable/data.table</a> doesn’t sefgault, but returns an error (and it’s right).</div><div id="bloop_customfont" style="font-family: Helvetica, Arial; font-size: 13px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; margin: 0px;" class="">The object returned from `multtest` is a list with 4 elements out of which 3rd and 4th are NULL.</div><div id="bloop_customfont" style="font-family: Helvetica, Arial; font-size: 13px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; margin: 0px;" class="">Since the list elements are not of equal length, it errors when trying to convert the result to a </div><div id="bloop_customfont" style="font-family: Helvetica, Arial; font-size: 13px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; margin: 0px;" class="">data.table.</div><div id="bloop_customfont" style="font-family: Helvetica, Arial; font-size: 13px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px; margin: 0px;" class=""><br class=""></div><br style="font-family: Helvetica, Arial; font-size: 13px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><div id="bloop_sign_1440234554897161984" class="bloop_sign" style="font-family: Helvetica, Arial; font-size: 13px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;"><div style="font-family: helvetica, arial; font-size: 13px;" class="">-- <br class="">Arun</div></div><br style="font-family: Helvetica, Arial; font-size: 13px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;" class=""><p class="airmail_on" style="font-family: Helvetica, Arial; font-size: 13px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;">On 20 Aug 2015 at 15:25:21, Tom Harrop (<a href="mailto:thomas.harrop@ird.fr" class="">thomas.harrop@ird.fr</a>) wrote:</p><blockquote type="cite" class="clean_bq" style="font-family: Helvetica, Arial; font-size: 13px; font-style: normal; font-variant: normal; font-weight: normal; letter-spacing: normal; line-height: normal; orphans: auto; text-align: start; text-indent: 0px; text-transform: none; white-space: normal; widows: auto; word-spacing: 0px; -webkit-text-stroke-width: 0px;"><span class=""><div class=""></div>Hello all, <br class=""><br class="">I'm running into a segfault using data.table with the multtest package: <br class=""><br class="">> > library(data.table) <br class="">> data.table 1.9.4 For help type: ?data.table <br class="">> *** NB: by=.EACHI is now explicit. See README to restore previous <br class="">> behaviour. <br class="">> > p <- data.table(pval = rnorm(100, 0.5, 0.1)) <br class="">> > p[, multtest::mt.rawp2adjp(pval, proc = "BH", alpha = 0.1)] <br class="">> <br class="">> *** caught segfault *** <br class="">> address 0x500000005, cause 'memory not mapped' <br class="">> <br class="">> Traceback: <br class="">> 1: `[.data.table`(x, i) <br class="">> 2: x[i] <br class="">> 3: head.data.table(x, topn) <br class="">> 4: head(x, topn) <br class="">> 5: rbind(head(x, topn), tail(x, topn)) <br class="">> 6: print.data.table(x) <br class="">> 7: function (x, ...) UseMethod("print")(x) <br class="">> <br class="">> Possible actions: <br class="">> 1: abort (with core dump, if enabled) <br class="">> 2: normal R exit <br class="">> 3: exit R without saving workspace <br class="">> 4: exit R saving workspace <br class=""><br class="">Am I doing something wrong? The following executes without problems <br class="">(otherwise I would be contacting the multtest authors!): <br class=""><br class="">> > library(data.table) <br class="">> data.table 1.9.4 For help type: ?data.table <br class="">> *** NB: by=.EACHI is now explicit. See README to restore previous <br class="">> behaviour. <br class="">> > p <- data.table(pval = rnorm(100, 0.5, 0.1)) <br class="">> > multtest::mt.rawp2adjp(p$pval, proc = "BH", alpha = 0.1) <br class=""><br class="">My sessionInfo is at the end. Please let me know if any more information <br class="">is required. <br class=""><br class="">Thanks for reading, <br class=""><br class="">Tom <br class=""><br class="">> > sessionInfo() <br class="">> R version 3.2.2 (2015-08-14) <br class="">> Platform: x86_64-pc-linux-gnu (64-bit) <br class="">> Running under: Ubuntu 14.04.3 LTS <br class="">> <br class="">> locale: <br class="">> [1] LC_CTYPE=en_AU.UTF-8 LC_NUMERIC=C <br class="">> [3] LC_TIME=en_AU.UTF-8 LC_COLLATE=en_AU.UTF-8 <br class="">> [5] LC_MONETARY=en_AU.UTF-8 LC_MESSAGES=en_AU.UTF-8 <br class="">> [7] LC_PAPER=en_AU.UTF-8 LC_NAME=C <br class="">> [9] LC_ADDRESS=C LC_TELEPHONE=C <br class="">> [11] LC_MEASUREMENT=en_AU.UTF-8 LC_IDENTIFICATION=C <br class="">> <br class="">> attached base packages: <br class="">> [1] stats graphics grDevices utils datasets methods base <br class="">> <br class="">> other attached packages: <br class="">> [1] data.table_1.9.4 <br class="">> <br class="">> loaded via a namespace (and not attached): <br class="">> [1] MASS_7.3-43 magrittr_1.5 plyr_1.8.3 <br class="">> [4] parallel_3.2.2 tools_3.2.2 survival_2.38-3 <br class="">> [7] reshape2_1.4.1 Rcpp_0.12.0 Biobase_2.28.0 <br class="">> [10] splines_3.2.2 multtest_2.24.0 stringi_0.5-5 <br class="">> [13] BiocGenerics_0.14.0 stringr_1.0.0 chron_2.3-47 <br class="">> [16] stats4_3.2.2 <br class="">> <br class=""><br class=""><br class="">_______________________________________________ <br class="">datatable-help mailing list <br class=""><a href="mailto:datatable-help@lists.r-forge.r-project.org" class="">datatable-help@lists.r-forge.r-project.org</a> <br class="">https://lists.r-forge.r-project.org/cgi-bin/mailman/listinfo/datatable-help</span></blockquote></div></blockquote></div><br class="">
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