Probably because the cache is not installed into the package. I'd check the tar.gz file to see if the cache is present.
ir. Thierry Onkelinx Statisticus / Statistician Vlaamse Overheid / Government of Flanders INSTITUUT VOOR NATUUR- EN BOSONDERZOEK / RESEARCH INSTITUTE FOR NATURE AND FOREST Team Biometrie & Kwaliteitszorg / Team Biometrics & Quality Assurance thierry.onkel...@inbo.be Havenlaan 88 bus 73, 1000 Brussel www.inbo.be /////////////////////////////////////////////////////////////////////////////////////////// To call in the statistician after the experiment is done may be no more than asking him to perform a post-mortem examination: he may be able to say what the experiment died of. ~ Sir Ronald Aylmer Fisher The plural of anecdote is not data. ~ Roger Brinner The combination of some data and an aching desire for an answer does not ensure that a reasonable answer can be extracted from a given body of data. ~ John Tukey /////////////////////////////////////////////////////////////////////////////////////////// <https://www.inbo.be> Op ma 1 feb. 2021 om 19:01 schreef Jose Barrera <jose.barr...@isglobal.org>: > Dear Thierry, > > Thanks for your advice. However, I would like to understand why when I > build the vignette to get the pdf from the Rnw, it takes just 8 seconds > once the "cache" folder has been created instead of the initial 4 minutes, > but this time reduction does not happen when checking the package. > > Best, > > Jose Barrera > Statistician, Associate Lecturer > > *IS**Global* > Barcelona Institute for Global Health - Campus MAR > Barcelona Biomedical Research Park (PRBB) (Room Hypatia) > > Doctor Aiguader, 88 > 08003 Barcelona, Spain > Tel. +34 93 2147383 > jose.barr...@isglobal.org > <https://www.linkedin.com/in/josebarrera> > Personal website: sites.google.com/view/josebarrera > www.isglobal.org > > This message is intended exclusively for its addressee and may contain > information that is CONFIDENTIAL and protected by professional privilege. > If you are not the intended recipient you are hereby notified that any > dissemination, copy or disclosure of this communication is strictly > prohibited by law. If this message has been received in error, please > immediately notify us via e-mail and delete it. > > DATA PROTECTION. We inform you that your personal data, including your > e-mail address and data included in your email correspondence, are included > in the ISGlobal Foundation filing system. Your personal data will be used > for the purpose of contacting you and sending information on the activities > of the above foundations. You can exercise your rights to access to > personal data, rectification, erasure, restriction of processing, data > portability and object by contacting the following address: *l...@isglobal.org > <l...@isglobal.org>*. ISGlobal Privacy Policy at *www.isglobal.org > <http://www.isglobal.org/>*. > > > ----------------------------------------------------------------------------------------------------------------------------- > > CONFIDENCIALIDAD. Este mensaje y sus anexos se dirigen exclusivamente a su > destinatario y puede contener información confidencial, por lo que la > utilización, divulgación y/o copia sin autorización está prohibida por la > legislación vigente. Si ha recibido este mensaje por error, le rogamos lo > comunique inmediatamente por esta misma vía y proceda a su destrucción. > > PROTECCIÓN DE DATOS. Sus datos de carácter personal utilizados en este > envío, incluida su dirección de e-mail, forman parte de ficheros de > titularidad de la Fundación ISGlobal para cualquier finalidades de > contacto, relación institucional y/o envío de información sobre sus > actividades. Los datos que usted nos pueda facilitar contestando este > correo quedarán incorporados en los correspondientes ficheros, autorizando > el uso de su dirección de e-mail para las finalidades citadas. Puede > ejercer los derechos de acceso, rectificación, supresión, limitación del > tratamiento, portabilidad y oposición dirigiéndose a *l...@isglobal.org > <l...@isglobal.org>* . Política de privacidad en *www.isglobal.org > <http://www.isglobal.org/>*. > > > El lun, 1 feb 2021 a las 13:02, Thierry Onkelinx (< > thierry.onkel...@inbo.be>) escribió: > >> Dear Jose, >> >> I store the results of CPU intensive chunks in the package. Have a look >> at >> https://github.com/ropensci/git2rdata/blob/master/vignettes/efficiency.Rmd >> . >> >> Best regards, >> >> ir. Thierry Onkelinx >> Statisticus / Statistician >> >> Vlaamse Overheid / Government of Flanders >> INSTITUUT VOOR NATUUR- EN BOSONDERZOEK / RESEARCH INSTITUTE FOR NATURE >> AND FOREST >> Team Biometrie & Kwaliteitszorg / Team Biometrics & Quality Assurance >> thierry.onkel...@inbo.be >> Havenlaan 88 bus 73, 1000 Brussel >> www.inbo.be >> >> >> /////////////////////////////////////////////////////////////////////////////////////////// >> To call in the statistician after the experiment is done may be no more >> than asking him to perform a post-mortem examination: he may be able to say >> what the experiment died of. ~ Sir Ronald Aylmer Fisher >> The plural of anecdote is not data. ~ Roger Brinner >> The combination of some data and an aching desire for an answer does not >> ensure that a reasonable answer can be extracted from a given body of data. >> ~ John Tukey >> >> /////////////////////////////////////////////////////////////////////////////////////////// >> >> <https://www.inbo.be> >> >> >> Op ma 1 feb. 2021 om 12:49 schreef Jose Barrera < >> jose.barr...@isglobal.org>: >> >>> Dear all, >>> >>> I have an issue when checking a package that includes a vignette using >>> cache = TRUE in some chunks. The vignette is generated with knit from an >>> Rnw document. The issue is that cache works when building the vignette >>> locally but it seems not working when checking the package. >>> >>> I have proceeded as follows: >>> >>> 1) R CMD build collin --resave-data >>> * creating vignettes... ---> 4 minutes >>> 2) R CMD check --as-cran collin_0.0.1.tar.gz >>> * checking re-building of vignette outputs ... ---> 4 minutes >>> 3) I install "collin_0.0.1.tar.gz" in my laptop >>> 4) In an R session, I build the vignette "collin/vignettes/collin.Rnw". >>> It >>> takes 4.7 minutes and the "cache" folder is created in >>> "collin/vignettes/" >>> 5) I remove all aux files in "collin/vignettes/" (now, the only extra >>> item >>> is the "cache" folder) >>> 6) I re-build the vignette in the R session and now it takes only 8 >>> seconds, so the cache is working >>> 7) Repeat 5) >>> 8) Repeat 1) and 2) but it still takes 4 minutes so it seems like R CMD >>> build and R CMD check are ignoring the "cache" folder in >>> "collin/vignettes/". >>> >>> I would be very grateful if you could provide some advice on how to fix >>> the >>> problem. >>> >>> Best, >>> >>> Jose Barrera >>> Statistician, Associate Lecturer >>> >>> ISGlobal >>> Barcelona Institute for Global Health - Campus MAR >>> Barcelona Biomedical Research Park (PRBB) (Room Hypatia) >>> >>> Doctor Aiguader, 88 >>> 08003 Barcelona, Spain >>> Tel. +34 93 2147383 >>> jose.barr...@isglobal.org >>> www.isglobal.org >>> >>> -- >>> >>> >>> This message is intended exclusively for its addressee and may contain >>> information that is CONFIDENTIAL and protected by professional >>> privilege. >>> If >>> you are not the intended recipient you are hereby notified that any >>> dissemination, copy or disclosure of this communication is strictly >>> prohibited >>> by law. If this message has been received in error, please >>> immediately notify >>> us via e-mail and delete it. >>> >>> >>> >>> DATA PROTECTION. We >>> inform you that your personal data, including your >>> e-mail address and data >>> included in your email correspondence, are included in >>> the ISGlobal >>> Foundation files. Your personal data will be used for the purpose >>> of >>> contacting you and sending information on the activities of the above >>> foundations. You can exercise your rights of access, rectification, >>> cancellation and opposition by contacting the following address: >>> l...@isglobal.org <mailto:l...@isglobal.org>. ISGlobal >>> Privacy Policy at >>> www.isglobal.org <http://www.isglobal.org/>. >>> >>> >>> >>> >>> ----------------------------------------------------------------------------------------------------------------------------- >>> >>> CONFIDENCIALIDAD. Este mensaje y sus anexos se dirigen exclusivamente a >>> su >>> destinatario y puede contener información confidencial, por lo que la >>> utilización, >>> divulgación y/o copia sin autorización está prohibida por la >>> legislación >>> vigente. Si ha recibido este mensaje por error, le rogamos lo >>> comunique >>> inmediatamente por esta misma vía y proceda a su destrucción. >>> >>> >>> >>> >>> >>> >>> >>> >>> >>> PROTECCIÓN DE DATOS. Sus datos de carácter personal utilizados en este >>> envío, incluida su dirección de e-mail, forman parte de ficheros de >>> titularidad >>> de la Fundación ISGlobal para cualquier >>> finalidades de >>> contacto, relación institucional y/o envío de información sobre >>> sus >>> actividades. Los datos que usted nos pueda facilitar contestando este >>> correo quedarán incorporados en los correspondientes ficheros, >>> autorizando >>> el >>> uso de su dirección de e-mail para las finalidades citadas. Puede >>> ejercer los >>> derechos de acceso, rectificación, cancelación y oposición >>> dirigiéndose a l...@isglobal.org <mailto:l...@isglobal.org>* *. >>> Política de >>> privacidad >>> en www.isglobal.org <http://www.isglobal.org/>. >>> >>> [[alternative HTML version deleted]] >>> >>> ______________________________________________ >>> R-package-devel@r-project.org mailing list >>> https://stat.ethz.ch/mailman/listinfo/r-package-devel >>> >> > This message is intended exclusively for its addressee and may contain > information that is CONFIDENTIAL and protected by professional privilege. > If you are not the intended recipient you are hereby notified that any > dissemination, copy or disclosure of this communication is strictly > prohibited by law. If this message has been received in error, please > immediately notify us via e-mail and delete it. > > DATA PROTECTION. We inform you that your personal data, including your > e-mail address and data included in your email correspondence, are included > in the ISGlobal Foundation files. Your personal data will be used for the > purpose of contacting you and sending information on the activities of the > above foundations. You can exercise your rights of access, rectification, > cancellation and opposition by contacting the following address: > l...@isglobal.org. ISGlobal Privacy Policy at www.isglobal.org. > > > ----------------------------------------------------------------------------------------------------------------------------- > > CONFIDENCIALIDAD. Este mensaje y sus anexos se dirigen exclusivamente a su > destinatario y puede contener información confidencial, por lo que la > utilización, divulgación y/o copia sin autorización está prohibida por la > legislación vigente. Si ha recibido este mensaje por error, le rogamos lo > comunique inmediatamente por esta misma vía y proceda a su destrucción. > > PROTECCIÓN DE DATOS. Sus datos de carácter personal utilizados en este > envío, incluida su dirección de e-mail, forman parte de ficheros de > titularidad de la Fundación ISGlobal para cualquier finalidades de > contacto, relación institucional y/o envío de información sobre sus > actividades. Los datos que usted nos pueda facilitar contestando este > correo quedarán incorporados en los correspondientes ficheros, autorizando > el uso de su dirección de e-mail para las finalidades citadas. Puede > ejercer los derechos de acceso, rectificación, cancelación y oposición > dirigiéndose a l...@isglobal.org . Política de privacidad en > www.isglobal.org. > [[alternative HTML version deleted]] ______________________________________________ R-package-devel@r-project.org mailing list https://stat.ethz.ch/mailman/listinfo/r-package-devel
