Hi Claudio, As you can see on our build/check report, what is broken is 'R CMD INSTALL Mulcom'. The problem is easy to reproduce:
hpages@spectre:~$ git clone https://git.bioconductor.org/packages/MulcomCloning into 'Mulcom'... remote: Enumerating objects: 570, done. remote: Counting objects: 100% (570/570), done. remote: Compressing objects: 100% (555/555), done. remote: Total 570 (delta 343), reused 0 (delta 0) Receiving objects: 100% (570/570), 4.87 MiB | 2.03 MiB/s, done. Resolving deltas: 100% (343/343), done. Checking connectivity... done. hpages@spectre:~$ R CMD INSTALL Mulcom * installing to library ‘/home/hpages/R/R-3.6.r76454/library’ * installing *source* package ‘Mulcom’ ... ** using staged installation ** libs ... ** R ** data ** inst ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** installing vignettes Warning in file(con, "w") : cannot open file '/home/hpages/R/R-3.6.r76454/library/00LOCK-Mulcom/00new/Mulcom/doc/index.html': No such file or directory Error in file(con, "w") : cannot open the connection ERROR: installing vignettes failed * removing ‘/home/hpages/R/R-3.6.r76454/library/Mulcom’ * restoring previous ‘/home/hpages/R/R-3.6.r76454/library/Mulcom’ What seems to cause this is the presence of things in your package source tree that don't belong there. These things are the build/ folder and the src/symbols.rds file. Remove them and the problem will go away. Please refer to the "Package structure" subsection of the "Writing R Extensions" manual (https://cran.r-project.org/doc/manuals/r-release/R-exts.html#Package-structure) for more information about how to maintain a valid package source tree. Hope this helps. Cheers, H. On 7/16/19 01:04, Claudio Isella wrote: > dear all, > > I am experiencing problem in generating a packages suitable for bioconductor > repositories. > > I checked locally and both build and check runs properly, however when the > package is pushed on the git server I received this error. > > https://urldefense.proofpoint.com/v2/url?u=https-3A__master.bioconductor.org_checkResults_3.9_bioc-2DLATEST_Mulcom_malbec2-2Dinstall.html&d=DwIFaQ&c=eRAMFD45gAfqt84VtBcfhQ&r=BK7q3XeAvimeWdGbWY_wJYbW0WYiZvSXAJJKaaPhzWA&m=fQ4-JqkOjn_u0m7mvGLwQi066aOuH10BLxJf-57chEI&s=1hd4QAH2fMt-gNr-Epi29tzpfOsGB-YvA0J-XXGU1lE&e= > > > can you help me? > > — > Claudio > -- 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 _______________________________________________ Bioc-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/bioc-devel