Thank you very much for the help so far! On Fri, Apr 24, 2020 at 8:08 AM Hervé Pagès <hpa...@fredhutch.org> wrote:
> OK, thanks testing that. This suggests that the problem is on our > side... sigh! I will need to dig deeper into this. > > Best, > H. > > > On 4/23/20 22:57, Bemis, Kylie wrote: > > Worked for me without errors or warnings: > > > > kuwisdelu@Eva-02-Dash Projects % R CMD build chimeraviz > > * checking for file ‘chimeraviz/DESCRIPTION’ ... OK > > * preparing ‘chimeraviz’: > > * checking DESCRIPTION meta-information ... OK > > * installing the package to build vignettes > > * creating vignettes ... OK > > * checking for LF line-endings in source and make files and shell scripts > > * checking for empty or unneeded directories > > Removed empty directory ‘chimeraviz/docker’ > > * building ‘chimeraviz_1.13.8.tar.gz’ > > > > kuwisdelu@Eva-02-Dash Projects % R CMD INSTALL chimeraviz_1.13.8.tar.gz > > * installing to library ‘/Users/kuwisdelu/Library/R/4.0/library’ > > * installing *source* package ‘chimeraviz’ ... > > ** using staged installation > > ** R > > ** inst > > ** byte-compile and prepare package for lazy loading > > ** help > > *** installing help indices > > ** building package indices > > ** installing vignettes > > ** testing if installed package can be loaded from temporary location > > ** testing if installed package can be loaded from final location > > ** testing if installed package keeps a record of temporary installation > > path > > * DONE (chimeraviz) > > > > Under: > > > >> sessionInfo() > > R version 4.0.0 RC (2020-04-18 r78249) > > Platform: x86_64-apple-darwin17.0 (64-bit) > > Running under: macOS Catalina 10.15.3 > > > > Matrix products: default > > BLAS: > > /Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libRblas.dylib > > LAPACK: > > > /Library/Frameworks/R.framework/Versions/4.0/Resources/lib/libRlapack.dylib > > > > locale: > > [1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8 > > > > attached base packages: > > [1] stats graphics grDevices utils datasets methods base > > > > loaded via a namespace (and not attached): > > [1] compiler_4.0.0 tools_4.0.0 > > > > The vignette looks okay as far as I can tell. > > > > -Kylie > > > > > > > > > > > > > >> On Apr 24, 2020, at 1:40 AM, Hervé Pagès <hpa...@fredhutch.org > >> <mailto:hpa...@fredhutch.org>> wrote: > >> > >> Interesting indeed. Thanks for checking this. > >> > >> Even though I'm not sure what conclusion to draw from all this. > >> > >> Since you are on a Mac, can I ask you another big favor? Do you think > >> you could run 'R CMD build' on chimeraviz and see if you can reproduce > >> the error we see on the build report here: > >> > >> > https://nam05.safelinks.protection.outlook.com/?url=https%3A%2F%2Fbioconductor.org%2FcheckResults%2F3.11%2Fbioc-LATEST%2Fchimeraviz%2Fmachv2-buildsrc.html&data=02%7C01%7Ck.bemis%40northeastern.edu%7Ca50b7fbb03654f8b503208d7e811f4b5%7Ca8eec281aaa34daeac9b9a398b9215e7%7C0%7C0%7C637233036132939427&sdata=s9fJRfwSMO0UkPEwdmrW7mZhEM%2FgCOYtQm3HO12DknA%3D&reserved=0 > >> < > https://urldefense.proofpoint.com/v2/url?u=https-3A__nam05.safelinks.protection.outlook.com_-3Furl-3Dhttps-253A-252F-252Fbioconductor.org-252FcheckResults-252F3.11-252Fbioc-2DLATEST-252Fchimeraviz-252Fmachv2-2Dbuildsrc.html-26amp-3Bdata-3D02-257C01-257Ck.bemis-2540northeastern.edu-257Ca50b7fbb03654f8b503208d7e811f4b5-257Ca8eec281aaa34daeac9b9a398b9215e7-257C0-257C0-257C637233036132939427-26amp-3Bsdata-3Ds9fJRfwSMO0UkPEwdmrW7mZhEM-252FgCOYtQm3HO12DknA-253D-26amp-3Breserved-3D0&d=DwMGaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=ChvNTQebsUvVKYAGSEtFgFNOcwgSzxXYjQ69oO9oBM0&s=Rkoe-LwrUsVZyqv9zyv00KH__7fWXhf-n8-ZTmYFdP4&e= > > > >> > >> Get the source with > >> > >> git clone > >> > https://nam05.safelinks.protection.outlook.com/?url=https%3A%2F%2Fgit.bioconductor.org%2Fpackages%2Fchimeraviz&data=02%7C01%7Ck.bemis%40northeastern.edu%7Ca50b7fbb03654f8b503208d7e811f4b5%7Ca8eec281aaa34daeac9b9a398b9215e7%7C0%7C0%7C637233036132939427&sdata=cTfgpg28qU2zPXAZn2DZs7k8TQKk290wYyj2vjD6Khw%3D&reserved=0 > >> > >> Thanks, > >> H. > >> > >> > >> On 4/23/20 21:55, Bemis, Kylie wrote: > >>> That’s interesting. I did: > >>>> BiocManager::install("Cardinal", type="mac.binary.el-capitan”) > >>>> browseVignettes("Cardinal") > >>> from R 3.6.3, and the figures using transparency in the vignettes > >>> look fine to me. > >>> When I use X11() to reproduce the warning locally, the transparent > >>> colors get truncated, so that the higher-alpha colors appear opaque > >>> and the lower-alpha colors don’t appear at all. > >>> However, in the merida1 vignette, the figures appear as I’d normally > >>> get form quartz() or pdf() locally, which don’t produce warnings for > >>> me on macOS 10.15.3. > >>> -Kylie > >>>> On Apr 24, 2020, at 12:39 AM, Hervé Pagès <hpa...@fredhutch.org > >>>> <mailto:hpa...@fredhutch.org>> wrote: > >>>> > >>>> Hi Kylie, > >>>> > >>>> I get the warnings on merida1 for Cardinal too e.g. when I run the > >>>> code in the Cardinal-2-stats vignette: > >>>> > >>>> merida1:vignettes biocbuild$ pwd > >>>> /Users/biocbuild/bbs-3.10-bioc/meat/Cardinal/vignettes > >>>> > >>>> merida1:vignettes biocbuild$ R CMD Stangle Cardinal-2-stats.Rmd > >>>> Output file: Cardinal-2-stats.R > >>>> > >>>> merida1:vignettes biocbuild$ R > >>>> ... > >>>> > source("Cardinal-2-stats.R", echo=TRUE) > >>>> ... > >>>> There were 14 warnings (use warnings() to see them) > >>>> > warnings() > >>>> Warning messages: > >>>> 1: In rect(left, top, r, b, angle = angle, density = density, ... > : > >>>> semi-transparency is not supported on this device: reported > >>>> only once per page > >>>> 2: In rect(left, top, r, b, angle = angle, density = density, ... > : > >>>> semi-transparency is not supported on this device: reported > >>>> only once per page > >>>> ... > >>>> > >>>> The thing is that 'R CMD build' does not display warnings, unless > >>>> there is an error. Maybe that's why you've never seen them until now > >>>> because of the error you have on machv2 (and other platforms). > >>>> > >>>> It's be interesting to know if the plots included in the vignette > >>>> are actually OK. Have you checked them? You can do this by > >>>> installing the Mac binary for Cardinal in BioC 3.10 with: > >>>> > >>>> BiocManager::install("Cardinal", type="mac.el-capitan.binary") > >>>> > >>>> (make sure you do this in R 3.6). This will install the vignette > >>>> generated on merida1. Then open the vignette via > >>>> browseVignettes("Cardinal") and check the plots. Do they look ok > >>>> despite the "semi-transparency" problem? > >>>> > >>>> Thanks, > >>>> H. > >>>> > >>>> > >>>> > >>>> On 4/23/20 20:39, Bemis, Kylie wrote: > >>>>> I’m now seeing the same "semi-transparency" error on my Mac builds > >>>>> for Cardinal. My vignettes have used transparency for years now and > >>>>> this has never been an issue before (on merida1 or otherwise). > >>>>> I can reproduce the error locally with an X11() device, but not > >>>>> with quartz(), png(), png(), etc. > >>>>> (Note that my Cardinal 2.5.9 builds are currently failing due to an > >>>>> unrelated issue that I’ve since fixed, but the build system hasn’t > >>>>> gotten to 2.5.11 yet.) > >>>>> ~~~ > >>>>> Kylie Ariel Bemis (she/her) > >>>>> Khoury College of Computer Sciences > >>>>> Northeastern University > >>>>> kuwisdelu.github.io > >>>>> < > https://nam05.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefense.proofpoint.com%2Fv2%2Furl%3Fu%3Dhttp-3A__kuwisdelu.github.io%26d%3DDwMGaQ%26c%3DeRAMFD45gAfqt84VtBcfhQ%26r%3DBK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA%26m%3DCO4n__SJ6oQxnPyEFpNoDuHw2Pa0aC_CznlpINGGORQ%26s%3DNl-SFGWHUlZqtDsccYwD2EHptbV_1lbboQkoGIwfeKI%26e%3D&data=02%7C01%7Ck.bemis%40northeastern.edu%7Ca50b7fbb03654f8b503208d7e811f4b5%7Ca8eec281aaa34daeac9b9a398b9215e7%7C0%7C0%7C637233036132939427&sdata=wWHZczFLad0imdTwrpSBsiqqdYyTX09n0MNXkpdpFVo%3D&reserved=0> > > >>>>> < > https://nam05.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefense.proofpoint.com%2Fv2%2Furl%3Fu%3Dhttps-3A__kuwisdelu.github.io%26d%3DDwMGaQ%26c%3DeRAMFD45gAfqt84VtBcfhQ%26r%3DBK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA%26m%3DiIfSQOsSomvKm_1GHwSPKYxnfvicYz3rNyk04PTXhxU%26s%3DitZMZz7G1z4hEn_h6m-WLnSXgIbD-41KOovzdseVHT4%26e%3D&data=02%7C01%7Ck.bemis%40northeastern.edu%7Ca50b7fbb03654f8b503208d7e811f4b5%7Ca8eec281aaa34daeac9b9a398b9215e7%7C0%7C0%7C637233036132939427&sdata=zcOG%2BEG%2Bk16OXD2SN6pCGrZrQX8Rpwpx07gqYuBGPBE%3D&reserved=0 > >>>>> < > https://nam05.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefense.proofpoint.com%2Fv2%2Furl%3Fu%3Dhttps-3A__nam05.safelinks.protection.outlook.com_-3Furl-3Dhttps-253A-252F-252Furldefense.proofpoint.com-252Fv2-252Furl-253Fu-253Dhttps-2D3A-5F-5Fkuwisdelu.github.io-2526d-253DDwMGaQ-2526c-253DeRAMFD45gAfqt84VtBcfhQ-2526r-253DBK7q3XeAvimeWdGbWY-5FwJYbW0WYiZvSXAJJKaaPhzWA-2526m-253DiIfSQOsSomvKm-5F1GHwSPKYxnfvicYz3rNyk04PTXhxU-2526s-253DitZMZz7G1z4hEn-5Fh6m-2DWLnSXgIbD-2D41KOovzdseVHT4-2526e-253D-26amp-3Bdata-3D02-257C01-257Ck.bemis-2540northeastern.edu-257C557e92d7107a41f63ec208d7e8098af2-257Ca8eec281aaa34daeac9b9a398b9215e7-257C0-257C0-257C637233000008658074-26amp-3Bsdata-3D9TmRy1lpNBJjGLZcqPqJY-252BMP32z2kgbsmTdvSn4RUk8-253D-26amp-3Breserved-3D0%26d%3DDwMGaQ%26c%3DeRAMFD45gAfqt84VtBcfhQ%26r%3DBK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA%26m%3DCO4n__SJ6oQxnPyEFpNoDuHw2Pa0aC_CznlpINGGORQ%26s%3DhNiYK5Qxom3Q8JMAgB15vH_K86oAT1s-ZFy1NFMtBcw%26e%3D&data=02%7C01%7Ck.bemis%40northeastern.edu%7Ca50b7fbb03654f8b503208d7e811f4b5%7Ca8eec281aaa34daeac9b9a398b9215e7%7C0%7C0%7C637233036132949421&sdata=F9edg0Pf5jT9RZGC8B%2FIxJvV4DpW8Ztv3ZUDkw06tcs%3D&reserved=0 > >> > >>>>>> On Apr 23, 2020, at 11:28 PM, Hervé Pagès <hpa...@fredhutch.org > >>>>>> <mailto:hpa...@fredhutch.org> <mailto:hpa...@fredhutch.org>> wrote: > >>>>>> > >>>>>> Ok so I'm changing my mind about this. I suspect that the error is > >>>>>> actually related to the warning. The error comes from the magick > >>>>>> package (a wrapper around the ImageMagick software) and it > >>>>>> indicates a failure to crop an empty image. It can easily be > >>>>>> reproduced with: > >>>>>> > >>>>>> ## Generate an empty image. > >>>>>> png("myplot.png", bg="transparent") > >>>>>> plot.new() > >>>>>> dev.off() > >>>>>> > >>>>>> ## Try to crop it. > >>>>>> magick::image_trim(magick::image_read("myplot.png")) > >>>>>> # Error in magick_image_trim(image, fuzz) : > >>>>>> # R: GeometryDoesNotContainImage `/Users/biocbuild/myplot.png' > >>>>>> @ # warning/attribute.c/GetImageBoundingBox/247 > >>>>>> > >>>>>> So I suspect that what happens is that the images generated on Mac > >>>>>> by the code in the vignette are empty (because of the > >>>>>> semi-transparency problem on Mac) which would explain why later > >>>>>> knitr fails to crop them (it uses magick::image_trim() for that). > >>>>>> > >>>>>> I don't exactly understand why we wouldn't have seen the problem > >>>>>> on merida1 though (same version of knitr (1.28) and magick (2.3) > >>>>>> on both machines) but it seems that chimeraviz has changed > >>>>>> significantly between BioC 3.10 and 3.11. Did you start using > >>>>>> semi-transparency recently in your plots? > >>>>>> > >>>>>> Best, > >>>>>> H. > >>>>>> > >>>>>> > >>>>>> On 4/23/20 19:42, Hervé Pagès wrote: > >>>>>>> Hi Stian, > >>>>>>> I went on machv2 and gave this a shot. I can reproduce the > >>>>>>> GeometryDoesNotContainImage error in an interactive session. I > >>>>>>> don't have an answer yet but I was curious about the > >>>>>>> "semi-transparency is not supported on this device" warning and > >>>>>>> was wondering if it could somehow be related with the error. > >>>>>>> It turns out that the warning is actually easy to reproduce on a > >>>>>>> Mac with something like this: > >>>>>>> plot.new() > >>>>>>> lines(c(0.1, 0.22), c(0.5, 0.44), type = "l", lwd = 1, col = > >>>>>>> "#FF000080") > >>>>>>> I think that the 4th byte (80) in the color specification > >>>>>>> ("#FF000080") is the level of transparency. > >>>>>>> I can get this warning on machv2 **and** merida1. Some googling > >>>>>>> indicates that this is a pretty common warning on Mac. Since we > >>>>>>> don't get the vignette error on merida1 I think it's unlikely > >>>>>>> that the warning is related to the error. > >>>>>>> I'll keep investigating the GeometryDoesNotContainImage error... > >>>>>>> H. > >>>>>>> On 4/22/20 01:59, Stian Lågstad wrote: > >>>>>>>> I'm still unable to reproduce this error on my end. If anyone > >>>>>>>> with a mac > >>>>>>>> could try building locally I would be very grateful. Thanks. > >>>>>>>> > >>>>>>>> On Sat, Apr 18, 2020 at 4:06 PM Stian Lågstad > >>>>>>>> <stianlags...@gmail.com <mailto:stianlags...@gmail.com> > >>>>>>>> <mailto:stianlags...@gmail.com>> > >>>>>>>> wrote: > >>>>>>>> > >>>>>>>>> Hi, > >>>>>>>>> > >>>>>>>>> I'm haven't been able to figure out this error for the latest > >>>>>>>>> machv2 build > >>>>>>>>> for chimeraviz: > >>>>>>>>> > >>>>>>>>> ``` > >>>>>>>>> Warning in doTryCatch(return(expr), name, parentenv, handler) : > >>>>>>>>> semi-transparency is not supported on this device: reported > >>>>>>>>> only once > >>>>>>>>> per page > >>>>>>>>> Quitting from lines 108-126 (chimeraviz-vignette.Rmd) > >>>>>>>>> Error: processing vignette 'chimeraviz-vignette.Rmd' failed with > >>>>>>>>> diagnostics: > >>>>>>>>> R: GeometryDoesNotContainImage > >>>>>>>>> > `/private/tmp/RtmpdBrrvk/Rbuild9ed5154894cc/chimeraviz/vignettes/chimeraviz-vignette_files/figure-html/unnamed-chunk-7-1.png' > >>>>>>>>> @ warning/attribute.c/GetImageBoundingBox/247 > >>>>>>>>> --- failed re-building ‘chimeraviz-vignette.Rmd’ > >>>>>>>>> ``` > >>>>>>>>> > >>>>>>>>> The build in question: > >>>>>>>>> > https://nam05.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefense.proofpoint.com%2Fv2%2Furl%3Fu%3Dhttp-3A__bioconductor.org_checkResults_3.11_bioc-2DLATEST_chimeraviz_machv2-2Dbuildsrc.html%26d%3DDwIFaQ%26c%3DeRAMFD45gAfqt84VtBcfhQ%26r%3DBK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA%26m%3DQ1W5ctHOQ2Hjw49pX7VAGBn7-u5l3mAqH1rt9tFNnZM%26s%3DA7jGEFF5ehz2Hsxmlr_vGmPSX3Xy2SwZErgyi1mPIuw%26e%3D&data=02%7C01%7Ck.bemis%40northeastern.edu%7Ca50b7fbb03654f8b503208d7e811f4b5%7Ca8eec281aaa34daeac9b9a398b9215e7%7C0%7C0%7C637233036132949421&sdata=%2BST%2B9JRGaOFHqb2h49INMs6j%2FmHm0PRG9q7OF5uQoa4%3D&reserved=0 > >>>>>>>>> < > 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> > >>>>>>>>> < > https://nam05.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefense.proofpoint.com%2Fv2%2Furl%3Fu%3Dhttps-3A__nam05.safelinks.protection.outlook.com_-3Furl-3Dhttps-253A-252F-252Furldefense.proofpoint.com-252Fv2-252Furl-253Fu-253Dhttp-2D3A-5F-5Fbioconductor.org-5FcheckResults-5F3.11-5Fbioc-2D2DLATEST-5Fchimeraviz-5Fmachv2-2D2Dbuildsrc.html-2526d-253DDwIFaQ-2526c-253DeRAMFD45gAfqt84VtBcfhQ-2526r-253DBK7q3XeAvimeWdGbWY-5FwJYbW0WYiZvSXAJJKaaPhzWA-2526m-253DQ1W5ctHOQ2Hjw49pX7VAGBn7-2Du5l3mAqH1rt9tFNnZM-2526s-253DA7jGEFF5ehz2Hsxmlr-5FvGmPSX3Xy2SwZErgyi1mPIuw-2526e-253D-26amp-3Bdata-3D02-257C01-257Ck.bemis-2540northeastern.edu-257C0fefe5ade3994ca1943e08d7e7ff9084-257Ca8eec281aaa34daeac9b9a398b9215e7-257C0-257C0-257C637232957151727562-26amp-3Bsdata-3Djz-252FO8NrKC2VZTuK4Z-252F7Fo19ExLg9d1C4LpzbZddhcQ8-253D-26amp-3Breserved-3D0%26d%3DDwMGaQ%26c%3DeRAMFD45gAfqt84VtBcfhQ%26r%3DBK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA%26m%3DiIfSQOsSomvKm_1GHwSPKYxnfvicYz3rNyk04PTXhxU%26s%3DP62BYr_gq2eIDAUWhWL4PX7IoRmhTn06cUUU4o6QdPE%26e%3D&data=02%7C01%7Ck.bemis%40northeastern.edu%7Ca50b7fbb03654f8b503208d7e811f4b5%7Ca8eec281aaa34daeac9b9a398b9215e7%7C0%7C0%7C637233036132949421&sdata=rQh%2FUV6sIvnCnD48zlsTyRsX7fASsifp%2FJWyKKMaHOI%3D&reserved=0 > >>>>>>>>> < > https://nam05.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefense.proofpoint.com%2Fv2%2Furl%3Fu%3Dhttps-3A__nam05.safelinks.protection.outlook.com_-3Furl-3Dhttps-253A-252F-252Furldefense.proofpoint.com-252Fv2-252Furl-253Fu-253Dhttps-2D3A-5F-5Fnam05.safelinks.protection.outlook.com-5F-2D3Furl-2D3Dhttps-2D253A-2D252F-2D252Furldefense.proofpoint.com-2D252Fv2-2D252Furl-2D253Fu-2D253Dhttp-2D2D3A-2D5F-2D5Fbioconductor.org-2D5FcheckResults-2D5F3.11-2D5Fbioc-2D2D2DLATEST-2D5Fchimeraviz-2D5Fmachv2-2D2D2Dbuildsrc.html-2D2526d-2D253DDwIFaQ-2D2526c-2D253DeRAMFD45gAfqt84VtBcfhQ-2D2526r-2D253DBK7q3XeAvimeWdGbWY-2D5FwJYbW0WYiZvSXAJJKaaPhzWA-2D2526m-2D253DQ1W5ctHOQ2Hjw49pX7VAGBn7-2D2Du5l3mAqH1rt9tFNnZM-2D2526s-2D253DA7jGEFF5ehz2Hsxmlr-2D5FvGmPSX3Xy2SwZErgyi1mPIuw-2D2526e-2D253D-2D26amp-2D3Bdata-2D3D02-2D257C01-2D257Ck.bemis-2D2540northeastern.edu-2D257C0fefe5ade3994ca1943e08d7e7ff9084-2D257Ca8eec281aaa34daeac9b9a398b9215e7-2D257C0-2D257C0-2D257C637232957151727562-2D26amp-2D3Bsdata-2D3Djz-2D252FO8NrKC2VZTuK4Z-2D252F7Fo19ExLg9d1C4LpzbZddhcQ8-2D253D-2D26amp-2D3Breserved-2D3D0-2526d-253DDwMGaQ-2526c-253DeRAMFD45gAfqt84VtBcfhQ-2526r-253DBK7q3XeAvimeWdGbWY-5FwJYbW0WYiZvSXAJJKaaPhzWA-2526m-253DiIfSQOsSomvKm-5F1GHwSPKYxnfvicYz3rNyk04PTXhxU-2526s-253DP62BYr-5Fgq2eIDAUWhWL4PX7IoRmhTn06cUUU4o6QdPE-2526e-253D-26amp-3Bdata-3D02-257C01-257Ck.bemis-2540northeastern.edu-257C557e92d7107a41f63ec208d7e8098af2-257Ca8eec281aaa34daeac9b9a398b9215e7-257C0-257C0-257C637233000008658074-26amp-3Bsdata-3DFDVD5ELC9sRWdB3VwJv3Fk9sZI9Zlm6sTh-252B1wYcPC1M-253D-26amp-3Breserved-3D0%26d%3DDwMGaQ%26c%3DeRAMFD45gAfqt84VtBcfhQ%26r%3DBK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA%26m%3DCO4n__SJ6oQxnPyEFpNoDuHw2Pa0aC_CznlpINGGORQ%26s%3DEwfAyleMRqJuyYNqmAeQs8dfpFeb8JeajCsvtlSfoOI%26e%3D&data=02%7C01%7Ck.bemis%40northeastern.edu%7Ca50b7fbb03654f8b503208d7e811f4b5%7Ca8eec281aaa34daeac9b9a398b9215e7%7C0%7C0%7C637233036132949421&sdata=vxu8Yw6yBfPk0ryXJCqQ%2B5F6xQ7fYOCo4ZxUZPLn1qo%3D&reserved=0 > >> > >>>>>>>>> > >>>>>>>>> If anyone has seen something like this before then I'd > >>>>>>>>> appreciate some > >>>>>>>>> help. Thank you! > >>>>>>>>> > >>>>>>>>> -- > >>>>>>>>> Stian Lågstad > >>>>>>>>> +47 41 80 80 25 > >>>>>>>>> > >>>>>>>> > >>>>>>>> > >>>>>> > >>>>>> -- > >>>>>> Hervé Pagès > >>>>>> > >>>>>> Program in Computational Biology > >>>>>> Division of Public Health Sciences > >>>>>> Fred Hutchinson Cancer Research Center > >>>>>> 1100 Fairview Ave. N, M1-B514 > >>>>>> P.O. Box 19024 > >>>>>> Seattle, WA 98109-1024 > >>>>>> > >>>>>> E-mail:hpa...@fredhutch.org <mailto:hpa...@fredhutch.org> > >>>>>> <mailto:hpa...@fredhutch.org> > >>>>>> Phone: (206) 667-5791 > >>>>>> Fax: (206) 667-1319 > >>>>>> > >>>>>> _______________________________________________ > >>>>>> Bioc-devel@r-project.org <mailto:Bioc-devel@r-project.org> > >>>>>> <mailto:Bioc-devel@r-project.org>mailing list > >>>>>> > https://nam05.safelinks.protection.outlook.com/?url=https%3A%2F%2Fstat.ethz.ch%2Fmailman%2Flistinfo%2Fbioc-devel&data=02%7C01%7Ck.bemis%40northeastern.edu%7Ca50b7fbb03654f8b503208d7e811f4b5%7Ca8eec281aaa34daeac9b9a398b9215e7%7C0%7C0%7C637233036132949421&sdata=Bdf8dvgaOBLd7EvbwojiUrB1cuLxzLq4FoIqWHj6aKA%3D&reserved=0 > >>>>>> < > https://nam05.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefense.proofpoint.com%2Fv2%2Furl%3Fu%3Dhttps-3A__nam05.safelinks.protection.outlook.com_-3Furl-3Dhttps-253A-252F-252Fstat.ethz.ch-252Fmailman-252Flistinfo-252Fbioc-2Ddevel-26amp-3Bdata-3D02-257C01-257Ck.bemis-2540northeastern.edu-257C557e92d7107a41f63ec208d7e8098af2-257Ca8eec281aaa34daeac9b9a398b9215e7-257C0-257C0-257C637233000008658074-26amp-3Bsdata-3DcvG4Wy-252Fl-252BP5pSYfwgdDJiHwZwvlTGBbKmFFSJoruaMg-253D-26amp-3Breserved-3D0%26d%3DDwMGaQ%26c%3DeRAMFD45gAfqt84VtBcfhQ%26r%3DBK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA%26m%3DCO4n__SJ6oQxnPyEFpNoDuHw2Pa0aC_CznlpINGGORQ%26s%3D4og1ORz-6_eQYm-M4A52k_q-zwqtsZzzQd1ZKgDmQ9o%26e%3D&data=02%7C01%7Ck.bemis%40northeastern.edu%7Ca50b7fbb03654f8b503208d7e811f4b5%7Ca8eec281aaa34daeac9b9a398b9215e7%7C0%7C0%7C637233036132959412&sdata=OtPn85TZoVi80MjQRWODH4%2FHvfMS53mg9byP0DMg8W0%3D&reserved=0> > > >>>>>> < > https://nam05.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefense.proofpoint.com%2Fv2%2Furl%3Fu%3Dhttps-3A__nam05.safelinks.protection.outlook.com_-3Furl-3Dhttps-253A-252F-252Fstat.ethz.ch-252Fmailman-252Flistinfo-252Fbioc-2Ddevel-26amp-3Bdata-3D02-257C01-257Ck.bemis-2540northeastern.edu-257C0fefe5ade3994ca1943e08d7e7ff9084-257Ca8eec281aaa34daeac9b9a398b9215e7-257C0-257C0-257C637232957151727562-26amp-3Bsdata-3D-252BSIWViTvvcbrxJdXzw0IobmTldrBgK4DNLz-252F-252B2QJb-252FI-253D-26amp-3Breserved-3D0%26d%3DDwMGaQ%26c%3DeRAMFD45gAfqt84VtBcfhQ%26r%3DBK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA%26m%3DiIfSQOsSomvKm_1GHwSPKYxnfvicYz3rNyk04PTXhxU%26s%3DC9R31cXoa76n1W0GH-SVyVxgikFTCUbcJ9kdZqLu1-g%26e%3D&data=02%7C01%7Ck.bemis%40northeastern.edu%7Ca50b7fbb03654f8b503208d7e811f4b5%7Ca8eec281aaa34daeac9b9a398b9215e7%7C0%7C0%7C637233036132959412&sdata=F5tQarKC%2B3TgOvA2eHlKKycL5pb5a4X879efzDBm7R4%3D&reserved=0 > >>>>>> < > https://nam05.safelinks.protection.outlook.com/?url=https%3A%2F%2Furldefense.proofpoint.com%2Fv2%2Furl%3Fu%3Dhttps-3A__nam05.safelinks.protection.outlook.com_-3Furl-3Dhttps-253A-252F-252Furldefense.proofpoint.com-252Fv2-252Furl-253Fu-253Dhttps-2D3A-5F-5Fnam05.safelinks.protection.outlook.com-5F-2D3Furl-2D3Dhttps-2D253A-2D252F-2D252Fstat.ethz.ch-2D252Fmailman-2D252Flistinfo-2D252Fbioc-2D2Ddevel-2D26amp-2D3Bdata-2D3D02-2D257C01-2D257Ck.bemis-2D2540northeastern.edu-2D257C0fefe5ade3994ca1943e08d7e7ff9084-2D257Ca8eec281aaa34daeac9b9a398b9215e7-2D257C0-2D257C0-2D257C637232957151727562-2D26amp-2D3Bsdata-2D3D-2D252BSIWViTvvcbrxJdXzw0IobmTldrBgK4DNLz-2D252F-2D252B2QJb-2D252FI-2D253D-2D26amp-2D3Breserved-2D3D0-2526d-253DDwMGaQ-2526c-253DeRAMFD45gAfqt84VtBcfhQ-2526r-253DBK7q3XeAvimeWdGbWY-5FwJYbW0WYiZvSXAJJKaaPhzWA-2526m-253DiIfSQOsSomvKm-5F1GHwSPKYxnfvicYz3rNyk04PTXhxU-2526s-253DC9R31cXoa76n1W0GH-2DSVyVxgikFTCUbcJ9kdZqLu1-2Dg-2526e-253D-26amp-3Bdata-3D02-257C01-257Ck.bemis-2540northeastern.edu-257C557e92d7107a41f63ec208d7e8098af2-257Ca8eec281aaa34daeac9b9a398b9215e7-257C0-257C0-257C637233000008658074-26amp-3Bsdata-3DL9rgvm-252BjOc-252BBTKrFY5zIclFbhscIsxz7qg67vuboNTU-253D-26amp-3Breserved-3D0%26d%3DDwMGaQ%26c%3DeRAMFD45gAfqt84VtBcfhQ%26r%3DBK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA%26m%3DCO4n__SJ6oQxnPyEFpNoDuHw2Pa0aC_CznlpINGGORQ%26s%3DPxStlSRhyaALfrbWZTFzMEQK_jGGExRUIY_1b6fahV8%26e%3D&data=02%7C01%7Ck.bemis%40northeastern.edu%7Ca50b7fbb03654f8b503208d7e811f4b5%7Ca8eec281aaa34daeac9b9a398b9215e7%7C0%7C0%7C637233036132959412&sdata=8OchQZ6XXi4D%2BVW17BTOPlqSJGNnnSGRWQZ%2BX3U4%2Fws%3D&reserved=0 > >> > >>>> > >>>> -- > >>>> Hervé Pagès > >>>> > >>>> Program in Computational Biology > >>>> Division of Public Health Sciences > >>>> Fred Hutchinson Cancer Research Center > >>>> 1100 Fairview Ave. N, M1-B514 > >>>> P.O. Box 19024 > >>>> Seattle, WA 98109-1024 > >>>> > >>>> E-mail: hpa...@fredhutch.org <mailto:hpa...@fredhutch.org> > >>>> Phone: (206) 667-5791 > >>>> Fax: (206) 667-1319 > >> > >> -- > >> Hervé Pagès > >> > >> Program in Computational Biology > >> Division of Public Health Sciences > >> Fred Hutchinson Cancer Research Center > >> 1100 Fairview Ave. N, M1-B514 > >> P.O. Box 19024 > >> Seattle, WA 98109-1024 > >> > >> E-mail: hpa...@fredhutch.org > >> Phone: (206) 667-5791 > >> Fax: (206) 667-1319 > > > > -- > Hervé Pagès > > Program in Computational Biology > Division of Public Health Sciences > Fred Hutchinson Cancer Research Center > 1100 Fairview Ave. N, M1-B514 > P.O. Box 19024 > Seattle, WA 98109-1024 > > E-mail: hpa...@fredhutch.org > Phone: (206) 667-5791 > Fax: (206) 667-1319 > -- Stian Lågstad +47 41 80 80 25 [[alternative HTML version deleted]] _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
