Hi Hervé, Thank you for your reply; I understand the constraints and limitations. So I'll look into the second solution you suggest (and will wait for Rtools40 to become the default toolchain).
Best, R. On Wed, 12-June-2019, at 01:11:38, Pages, Herve <hpa...@fredhutch.org> wrote: > Hi Ramon, > > We try to not be adventurous with what we put on the build machines so > we'd like to stick to whatever Rtools version is officially the current > stable one. > > Also we don't have a mechanism for switching to a different package > code base or branch on some platforms. This wouldn't be a good idea > anyway because then Windows users trying to install the source package > would get something different than what they get when installing the > binary. This would maybe be acceptable if the source and binaries had > different versions but I can't think of any versioning scheme that would > both allow you to handle this and play nice with Bioconductor versioning > scheme. > > So I'm afraid the 2 only solutions for now are: > > 1) Let the package fail on the Windows builder (we can mark it > as unsupported on Windows). > > 2) Use conditionals in your code (e.g. "if (platform is Windows) > then do this else do that") to make the new functionality available > on non Windows platforms. With this solution, Windows users > will be able to use everything in the package except this new > functionality. > > HTH, > > H. > > > On 6/4/19 04:13, Ramon Diaz-Uriarte wrote: >> >> Dear All, >> >> (Follow up to >> https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_pipermail_bioc-2Ddevel_2019-2DMay_015151.html&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=_6xTfTTU7Nf_ytIv4RV3f0dN5rUUFrfwJu3b0_3lqsY&s=PtKX7VQrfC7KQbl6O-yXaEKys9IGQuUBSMVKtJ1EnO0&e= >> ) >> >> The newest version of a package we develop, OncoSimulR[1] cannot be built >> with Rtools35, the current toolchain[2], because of a known problem where >> compilation and linking fail[3]. >> >> >> However, we can build the package with Rtools40, and that produces a >> binary zip file that works with current R-3.6.0, R-3.6.0 patched, and >> R-devel. >> >> >> Is there any way to make the new functionality available through BioC in >> all the platforms? (I understand the answer is probably "no", since testing >> under Windows would not be possible with the current Rtools35 toolchain). >> >> Alternatively, is it possible to have some platforms use one code base or >> branch in a repo, and another platform (Windows) use a different code >> base/branch (i.e., use a code base without the new functionality so that it >> can build and check OK with Rtools 35)? >> >> Of course, any other suggestions welcome. >> >> >> >> Thanks, >> >> R. >> >> >> [1] >> https://urldefense.proofpoint.com/v2/url?u=https-3A__bioconductor.org_packages_release_bioc_html_OncoSimulR.html&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=_6xTfTTU7Nf_ytIv4RV3f0dN5rUUFrfwJu3b0_3lqsY&s=MJq-nWf5OPsjWdfA_AO_5FQlFgHJDfSHzOpL3ldX4js&e= >> https://urldefense.proofpoint.com/v2/url?u=https-3A__github.com_rdiaz02_OncoSimul_tree_freq-2Ddep-2Dfitness&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=_6xTfTTU7Nf_ytIv4RV3f0dN5rUUFrfwJu3b0_3lqsY&s=uWPj2OmSHXduU9GTa2HuDAfSjT77Q643cHo7-dgLSw0&e= >> >> >> [2] >> https://urldefense.proofpoint.com/v2/url?u=https-3A__cran.r-2Dproject.org_bin_windows_Rtools_&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=_6xTfTTU7Nf_ytIv4RV3f0dN5rUUFrfwJu3b0_3lqsY&s=AcfE1hiD6aC6pTBm2dLCoPLanwoDo0DabfZagD3k4jk&e= >> >> [3] The "too many sections" error or the linker never finishing. E.g., >> https://urldefense.proofpoint.com/v2/url?u=https-3A__sourceforge.net_p_mingw-2Dw64_discussion_723797_thread_c6b70624_&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=_6xTfTTU7Nf_ytIv4RV3f0dN5rUUFrfwJu3b0_3lqsY&s=VyV58euSzIx7Bw678kuf3VQ-StYVUZT1r-gYuUA0qiU&e= >> >> >> -- >> Ramon Diaz-Uriarte >> Department of Biochemistry, Lab B-25 >> Facultad de Medicina >> Universidad Autónoma de Madrid >> Arzobispo Morcillo, 4 >> 28029 Madrid >> Spain >> >> Phone: +34-91-497-2412 >> >> Email: rdia...@gmail.com >> ramon.d...@iib.uam.es >> >> https://urldefense.proofpoint.com/v2/url?u=http-3A__ligarto.org_rdiaz&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=_6xTfTTU7Nf_ytIv4RV3f0dN5rUUFrfwJu3b0_3lqsY&s=r6FEs_1DV66f_CPzlq__0vNjOtoYXaTZCdjSATihXmY&e= >> >> _______________________________________________ >> Bioc-devel@r-project.org mailing list >> https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mailman_listinfo_bioc-2Ddevel&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=_6xTfTTU7Nf_ytIv4RV3f0dN5rUUFrfwJu3b0_3lqsY&s=5oVrYps_p71fghBetRc49b8su8Q5Ufdze9XyUlo8ZKI&e= >> -- Ramon Diaz-Uriarte Department of Biochemistry, Lab B-25 Facultad de Medicina Universidad Autónoma de Madrid Arzobispo Morcillo, 4 28029 Madrid Spain Phone: +34-91-497-2412 Email: rdia...@gmail.com ramon.d...@iib.uam.es http://ligarto.org/rdiaz _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel
