Agreed that I cannot reproduce with generated data sets on el capitan either but would be glad to test with any real data you have.
On Fri, Dec 4, 2015 at 11:23 AM, Jeroen Ooms <[email protected]> wrote: > Can you include a reproducible example? This seems to work for me as expected: > > x <- rnorm(1e8) > saveRDS(x, tmp <- tempfile()) > file.info(tmp)$size > y <- readRDS(tmp) > identical(x,y) > > Could be a hw issue with your disk. > > > > > On Sun, Nov 29, 2015 at 4:34 PM, Charles DiMaggio > <[email protected]> wrote: >> Hi. After upgrading to el capitan R hangs on readRDS() and load() for >> largish (say 500MB or larger) files, requiring a Force Quit of R. I am >> working on a 64 GB Mac Pro machine and had no problem loading these size >> files prior to upgrade. Reading and loading smaller files (1MB or less) >> seems to work fine. I re-installed R 3.2.2 GUI 1.66 Mavericks, XQuartz and >> CLT after the upgrade. Turned off SIP but experienced the same problem. >> >> I've looked over recent list posting about R behavior after upgrade to el >> capitan, and have not seen anything about this. Am hoping >> soon-to-be-released R version 3.2.3 (Wooden Christmas-Tree) will address >> this weirdness, but wondering if anyone else has experienced anything >> similar? >> >> First few of lines of Mac Error Report below: >> >> Date/Time: 2015-11-28 15:45:00 -0500 >> OS Version: Mac OS X 10.11.1 (Build 15B42) >> Architecture: x86_64 >> Report Version: 22 >> >> Command: R >> Path: /Applications/R.app/Contents/MacOS/R >> Version: R 3.2.2 GUI 1.66 Mavericks build (6996) >> Parent: launchd [1] >> PID: 563 >> >> Event: hang >> Duration: 1.70s (process was unresponsive for 25 seconds before >> sampling) >> Steps: 17 (100ms sampling interval) >> >> Hardware model: MacPro6,1 >> Active cpus: 8 >> >> ... >> >> Heaviest stack for the main thread of the target process: >> 17 start + 1 (libdyld.dylib + 13741) [0x7fff88f2f5ad] >> 17 main + 815 (R + 5967) [0x1053e374f] >> 17 -[REngine runREPL] + 138 (R + 75578) [0x1053f473a] >> 17 run_REngineRmainloop + 295 (R + 123751) [0x105400367] >> 17 ??? (<56AA7B12-7A0D-3F36-8116-218A93BC3CB3> + 1243228) [0x10561d85c] >> 17 ??? (<56AA7B12-7A0D-3F36-8116-218A93BC3CB3> + 675070) [0x105592cfe] >> 17 ??? (<56AA7B12-7A0D-3F36-8116-218A93BC3CB3> + 1044002) [0x1055ece22] >> 17 ??? (<56AA7B12-7A0D-3F36-8116-218A93BC3CB3> + 674823) [0x105592c07] >> 17 ??? (<56AA7B12-7A0D-3F36-8116-218A93BC3CB3> + 1029000) [0x1055e9388] >> 17 ??? (<56AA7B12-7A0D-3F36-8116-218A93BC3CB3> + 673910) [0x105592876] >> 17 ??? (<56AA7B12-7A0D-3F36-8116-218A93BC3CB3> + 750621) [0x1055a541d] >> 17 ??? (<56AA7B12-7A0D-3F36-8116-218A93BC3CB3> + 1601435) [0x105674f9b] >> 17 ??? (<56AA7B12-7A0D-3F36-8116-218A93BC3CB3> + 1592422) [0x105672c66] >> 17 ??? (<56AA7B12-7A0D-3F36-8116-218A93BC3CB3> + 1594038) [0x1056732b6] >> 14 ??? (<56AA7B12-7A0D-3F36-8116-218A93BC3CB3> + 1596619) [0x105673ccb] >> 7 ??? (<56AA7B12-7A0D-3F36-8116-218A93BC3CB3> + 1595584) [0x1056738c0] >> 6 ??? (<56AA7B12-7A0D-3F36-8116-218A93BC3CB3> + 1592773) [0x105672dc5] >> 6 ??? (<56AA7B12-7A0D-3F36-8116-218A93BC3CB3> + 1600194) [0x105674ac2] >> 6 ??? (<56AA7B12-7A0D-3F36-8116-218A93BC3CB3> + 383889) [0x10554bb91] >> 6 ??? (<56AA7B12-7A0D-3F36-8116-218A93BC3CB3> + 316653) [0x10553b4ed] >> 1 inflate + 258 (libz.1.dylib + 20735) [0x7fff9e4e30ff] (running) >> >> >> Process: R [563] >> Path: /Applications/R.app/Contents/MacOS/R >> Architecture: x86_64 >> Parent: launchd [1] >> UID: 501 >> Task size: 350330 pages (+14553) >> CPU Time: 1.604s >> Note: Unresponsive for 25 seconds before sampling >> Note: 2 idle work queue threads omitted >> >> >> Cheers >> >> Charles >> >> >> Charles DiMaggio, PhD, MPH >> Director of Injury Research >> Department of Surgery >> New York University School of Medicine >> Division of Trauma, Emergency Surgery and Critical Care Surgery >> Bellevue Hosptial Center >> 462 First Avenue, NBV 15 >> New York, NY 10016-9196 >> [email protected] >> Office: 212.263.3202 >> Mobile: 516.308.6426 >> >> >> >> >> >> >> >> [[alternative HTML version deleted]] >> >> _______________________________________________ >> R-SIG-Mac mailing list >> [email protected] >> https://stat.ethz.ch/mailman/listinfo/r-sig-mac > > _______________________________________________ > R-SIG-Mac mailing list > [email protected] > https://stat.ethz.ch/mailman/listinfo/r-sig-mac _______________________________________________ R-SIG-Mac mailing list [email protected] https://stat.ethz.ch/mailman/listinfo/r-sig-mac
