Hi Tag, Yes, I have been trying to resolve issues with Pandoc on our build machines. I know this affected your build report and others. Since you're going through a package review, you'll likely see this resolved sooner on the single package report. For anyone who is looking at the build reports, it will be resolved on Wednesday's report.
Jennifer Wokaty (they/them) Waldron Lab at CUNY SPH Bioconductor Core Team ________________________________ From: Bioc-devel <bioc-devel-boun...@r-project.org> on behalf of Y-h. Taguchi <t...@granular.com> Sent: Tuesday, March 7, 2023 8:10 AM To: bioc-devel@r-project.org <bioc-devel@r-project.org> Subject: [Bioc-devel] Fwd: TDbasedUFE problems reported in the Multiple platform build/check report for BioC 3.17 ***ATTENTION: This email came from an external source. Do not open attachments or click on links from unknown senders or unexpected emails.*** Dear People, Although I have received the following error message, it might not be because of my side The reasons why I thinks so are 1) The error is >Could not find executable pandoc-citeproc This means that the system that tries to build is missing pandoc. 2) many other packages receive the same error. Here are some examples Multiple platform build/check report for BioC 3.17 - BUILD results for BG2 on nebbiolo1 (bioconductor.org) <https://urldefense.proofpoint.com/v2/url?u=http-3A__bioconductor.org_checkResults_devel_bioc-2DLATEST_BG2_nebbiolo1-2Dbuildsrc.html&d=DwIFaQ&c=mRWFL96tuqj9V0Jjj4h40ddo0XsmttALwKjAEOCyUjY&r=FKSqKXkUOES-D4VQb2jSn9QK7Vz5lE18rLcyn73CPhA&m=I5Sw5JzBx8K6loFZY3AYVvZX8IfWJ4Au7Hsa65WUiOgfwprbceTNkissdG8hk5f2&s=rTl4QTHfTCVAk4tF1Hqn3gF7kVaEd1aqokt_PDyL26Y&e= > Multiple platform build/check report for BioC 3.17 - BUILD results for planttfhunter on nebbiolo1 (bioconductor.org) <https://urldefense.proofpoint.com/v2/url?u=http-3A__bioconductor.org_checkResults_devel_bioc-2DLATEST_planttfhunter_nebbiolo1-2Dbuildsrc.html&d=DwIFaQ&c=mRWFL96tuqj9V0Jjj4h40ddo0XsmttALwKjAEOCyUjY&r=FKSqKXkUOES-D4VQb2jSn9QK7Vz5lE18rLcyn73CPhA&m=I5Sw5JzBx8K6loFZY3AYVvZX8IfWJ4Au7Hsa65WUiOgfwprbceTNkissdG8hk5f2&s=hgAyDMpoNzjzUXOAGfYsLp0AW2f-ip7-8wMfCq36IgU&e= > Multiple platform build/check report for BioC 3.17 - BUILD results for MetaPhOR on nebbiolo1 (bioconductor.org) <https://urldefense.proofpoint.com/v2/url?u=http-3A__bioconductor.org_checkResults_devel_bioc-2DLATEST_MetaPhOR_nebbiolo1-2Dbuildsrc.html&d=DwIFaQ&c=mRWFL96tuqj9V0Jjj4h40ddo0XsmttALwKjAEOCyUjY&r=FKSqKXkUOES-D4VQb2jSn9QK7Vz5lE18rLcyn73CPhA&m=I5Sw5JzBx8K6loFZY3AYVvZX8IfWJ4Au7Hsa65WUiOgfwprbceTNkissdG8hk5f2&s=dEtwOE6mblSAZVbAJzRpgZjL0APrTbDjlU9GS16eCk8&e= > 3) I did not commit anything since it has passed the build test last time. Is it possible for you to check if your system that performs build is OK or not? Yours, tag. ---------- Forwarded message --------- From: <bbs-nore...@bioconductor.org> Date: 2023$BG/(B3$B7n(B7$BF|(B($B2P(B) 2:06 Subject: TDbasedUFE problems reported in the Multiple platform build/check report for BioC 3.17 To: <t...@granular.com> [This is an automatically generated email. Please don't reply.] Hi TDbasedUFE maintainer, According to the Multiple platform build/check report for BioC 3.17, the TDbasedUFE package has the following problem(s): o ERROR for 'R CMD build' on nebbiolo1. See the details here: https://urldefense.proofpoint.com/v2/url?u=https-3A__master.bioconductor.org_checkResults_3.17_bioc-2DLATEST_TDbasedUFE_nebbiolo1-2Dbuildsrc.html&d=DwIFaQ&c=mRWFL96tuqj9V0Jjj4h40ddo0XsmttALwKjAEOCyUjY&r=FKSqKXkUOES-D4VQb2jSn9QK7Vz5lE18rLcyn73CPhA&m=I5Sw5JzBx8K6loFZY3AYVvZX8IfWJ4Au7Hsa65WUiOgfwprbceTNkissdG8hk5f2&s=NgRAs3gpRQ7oz-bAocvNL3Ic7-gy2-r1QUX8ewU_Gec&e= Please take the time to address this by committing and pushing changes to your package at git.bioconductor.org Notes: * This was the status of your package at the time this email was sent to you. Given that the online report is updated daily (in normal conditions) you could see something different when you visit the URL(s) above, especially if you do so several days after you received this email. * It is possible that the problems reported in this report are false positives, either because another package (from CRAN or Bioconductor) breaks your package (if yours depends on it) or because of a Build System problem. If this is the case, then you can ignore this email. * Please check the report again 24h after you've committed your changes to the package and make sure that all the problems have gone. * If you have questions about this report or need help with the maintenance of your package, please use the Bioc-devel mailing list: https://urldefense.proofpoint.com/v2/url?u=https-3A__bioconductor.org_help_mailing-2Dlist_&d=DwIFaQ&c=mRWFL96tuqj9V0Jjj4h40ddo0XsmttALwKjAEOCyUjY&r=FKSqKXkUOES-D4VQb2jSn9QK7Vz5lE18rLcyn73CPhA&m=I5Sw5JzBx8K6loFZY3AYVvZX8IfWJ4Au7Hsa65WUiOgfwprbceTNkissdG8hk5f2&s=AKZXRPLkd_Tjy6IDLooexFjIdbZVb0Vz5LvUdeaFrOY&e= (all package maintainers are requested to subscribe to this list) For immediate notification of package build status, please subscribe to your package's RSS feed. Information is at: https://urldefense.proofpoint.com/v2/url?u=https-3A__bioconductor.org_developers_rss-2Dfeeds_&d=DwIFaQ&c=mRWFL96tuqj9V0Jjj4h40ddo0XsmttALwKjAEOCyUjY&r=FKSqKXkUOES-D4VQb2jSn9QK7Vz5lE18rLcyn73CPhA&m=I5Sw5JzBx8K6loFZY3AYVvZX8IfWJ4Au7Hsa65WUiOgfwprbceTNkissdG8hk5f2&s=-w5wCrYEQZgySaXomcBJn7OboGe6e7HvvQQHLdExrM0&e= Thanks for contributing to the Bioconductor project! -- Y-h. Taguchi, Dept. 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