Hmm, I just built R-3.4.4-foss-2018a-X11-20180131.eb with EasyBuild/3.6.2 and saw no sanity check errors.
On 08/07/2018 07:30 PM, Dey, John F wrote: > Do you have a suggestion to resolve the sanity check failures? Change version > of EB? Is there a patch or issue I can work on? > > thanks > > John Dey > > On 8/7/18, 9:50 AM, "[email protected] on behalf of Kenneth > Hoste" <[email protected] on behalf of [email protected]> > wrote: > > Hi John, > > On 07/08/2018 03:25, John Dey wrote: > > I have never seen a sanity check failure for R extensions until > > upgrading to EB 3.6.2. I now have 53 failures. How is EB testing > > sanity? Many of these packages output citation information, copyright > > notices, brief tutorials, etc... when loaded with library command. > > It sounds like you're being bitten by a bug fix that was added in > EasyBuild v3.4.0 (cfr. > > https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_easybuilders_easybuild-2Dframework_pull_2276&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=3TR-iteG1SyRqQ5yubQg-_2KIAToz9bj5dZrRdW36Hc&m=UEHxw5ZrGms97sCXOnI6jaaWSP50Z74qS6EwuXbORBI&s=fW9DFtAEYScDSdgO9Dx8QR0_6_e6GowlSlbcQ7f-kdE&e=). > > The sanity check for R packages was supposed to check that loading the > actual library worked by passing "library(foo)" as a command to R via > stdin, but it was silently being skipped due to a bug in the EasyBuild > framework. > > Checking that way ensures that all dependencies required for that R > package are also available (see for example > > https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_easybuilders_easybuild-2Deasyconfigs_pull_4889&d=DwIDaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=3TR-iteG1SyRqQ5yubQg-_2KIAToz9bj5dZrRdW36Hc&m=UEHxw5ZrGms97sCXOnI6jaaWSP50Z74qS6EwuXbORBI&s=mtyOHICI2aXZ-K90SYDX8UkgR5_Fcz645ieC258ubss&e=). > > > regards, > > Kenneth > > -- Ake Sandgren, HPC2N, Umea University, S-90187 Umea, Sweden Internet: [email protected] Phone: +46 90 7866134 Fax: +46 90-580 14 Mobile: +46 70 7716134 WWW: http://www.hpc2n.umu.se
