Hi Javier, Because this is an issue about open-source pymol, open an issue on the open-source GitHub site and report the problem
https://github.com/schrodinger/pymol-open-source/issues Best regards, Blaine Blaine Mooers, Ph.D. Associate Professor Department of Biochemistry and Molecular Biology College of Medicine University of Oklahoma Health Sciences Center S.L. Young Biomedical Research Center (BRC) Rm. 466 975 NE 10th Street, BRC 466 Oklahoma City, OK 73104-5419 ________________________________________ From: CCP4 bulletin board [CCP4BB@JISCMAIL.AC.UK] on behalf of Javier Gonzalez [bio...@gmail.com] Sent: Saturday, June 13, 2020 6:45 PM To: CCP4BB@JISCMAIL.AC.UK Subject: [EXTERNAL] [ccp4bb] Macports and Fink - failed building open source pymol on MacOS Catalina Hello, I'm attempting to build pymol on a laptop running MacOS Catalina 10.15.5, Processor 2.8GHz Quad-Core Intel i7, Graphics Intel Iris Pro 1536 MB I downloaded the latest version of Xcode 11.1 I tried from Fink (fink install pymol-py27) and Macports (sudo port install pymol), as indicated here: https://pymolwiki.org/index.php/MAC_Install<https://urldefense.proofpoint.com/v2/url?u=https-3A__pymolwiki.org_index.php_MAC-5FInstall&d=DwMFaQ&c=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY&r=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks&m=kT3F0qPZ7hI98b3h0YTHyCwS8vQy7JKxTnlsVitdb1w&s=B8hC_f0PMlJxXkzo7QpqvmuTlvPFET9myuMD5mUpUbU&e=> Both scripts run to download all dependencies but at the end fail with different messages (see below). Any ideas? Is it doable or am I just following outdated instructions? Thanks in advance! Javier Fink: fails at compiling term-readkey-pm5184-2.37-1 ------------------------------------------------------------------------------------------------------------- ------------------------------------------------------------------------------------------------------------- Failed: phase compiling: term-readkey-pm5184-2.37-1 failed Before reporting any errors, please run "fink selfupdate" and try again. Also try using "fink configure" to set your maximum build jobs to 1 and attempt to build the package again. If you continue to have issues, please check to see if the FAQ on Fink's website solves the problem. If not, ask on one (not both, please) of these mailing lists: The Fink Users List <fink-us...@lists.sourceforge.net<mailto:fink-us...@lists.sourceforge.net>> The Fink Beginners List <fink-beginn...@lists.sourceforge.net<mailto:fink-beginn...@lists.sourceforge.net>>, with a carbon copy to the maintainer: Christian Schaffner <chri...@users.sourceforge.net<mailto:chri...@users.sourceforge.net>> Note that this is preferable to emailing just the maintainer directly, since most fink package maintainers do not have access to all possible hardware and software configurations. Please try to include the complete error message in your report. This generally consists of a compiler line starting with e.g. "gcc" or "g++" followed by the actual error output from the compiler. Also include the following system information: Package manager version: 0.45.1 Distribution version: selfupdate-rsync Fri Jun 12 21:49:17 2020, 10.15, x86_64 Trees: local/main stable/main Xcode.app<https://urldefense.proofpoint.com/v2/url?u=http-3A__Xcode.app&d=DwQFaQ&c=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY&r=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks&m=kT3F0qPZ7hI98b3h0YTHyCwS8vQy7JKxTnlsVitdb1w&s=pJ2WMWnX2YbGmVykOgsCdk15IJcJiGHSbScNq2RIdqM&e=>: 11.5 Xcode command-line tools: 11.5.0.0.1.1588476445 Max. Fink build jobs: 8 ------------------------------------------------------------------------------------------------------------- ------------------------------------------------------------------------------------------------------------- Macports: apparently there is an issue with py38-pyqt5 ---> Computing dependencies for pymol The following dependencies will be installed: py38-pyqt5 Continue? [Y/n]: ---> Fetching archive for py38-pyqt5 ---> Attempting to fetch py38-pyqt5-5.14.2_0.darwin_19.x86_64.tbz2 from https://packages.macports.org/py38-pyqt5<https://urldefense.proofpoint.com/v2/url?u=https-3A__packages.macports.org_py38-2Dpyqt5&d=DwMFaQ&c=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY&r=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks&m=kT3F0qPZ7hI98b3h0YTHyCwS8vQy7JKxTnlsVitdb1w&s=HXzceoCE4NrXw7l9SeGxEVG84RWS0KqIElfV_kw0Grk&e=> ---> Attempting to fetch py38-pyqt5-5.14.2_0.darwin_19.x86_64.tbz2 from http://aus.us.packages.macports.org/macports/packages/py38-pyqt5<https://urldefense.proofpoint.com/v2/url?u=http-3A__aus.us.packages.macports.org_macports_packages_py38-2Dpyqt5&d=DwMFaQ&c=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY&r=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks&m=kT3F0qPZ7hI98b3h0YTHyCwS8vQy7JKxTnlsVitdb1w&s=EMr3UPpvA_kadqXDAsDvRVJJuzPCPswslDML4vft2SQ&e=> ---> Attempting to fetch py38-pyqt5-5.14.2_0.darwin_19.x86_64.tbz2 from https://ywg.ca.packages.macports.org/mirror/macports/packages/py38-pyqt5<https://urldefense.proofpoint.com/v2/url?u=https-3A__ywg.ca.packages.macports.org_mirror_macports_packages_py38-2Dpyqt5&d=DwMFaQ&c=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY&r=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks&m=kT3F0qPZ7hI98b3h0YTHyCwS8vQy7JKxTnlsVitdb1w&s=yaYYRaM3fYH3_Zia6lzTJRWitV6Vvu9wh6Nc_rWYx5w&e=> ---> Building py38-pyqt5 Error: Failed to build py38-pyqt5: command execution failed Error: See /opt/local/var/macports/logs/_opt_local_var_macports_sources_rsync.macports.org_macports_release_tarballs_ports_python_py-pyqt5/py38-pyqt5/main.log for details. Error: Follow https://guide.macports.org/#project.tickets<https://urldefense.proofpoint.com/v2/url?u=https-3A__guide.macports.org_-23project.tickets&d=DwMFaQ&c=VjzId-SM5S6aVB_cCGQ0d3uo9UfKByQ3sI6Audoy6dY&r=k0gMbcsdOcdbPUNV5tW66KQSZfXL0ewVDPVBp7tqbks&m=kT3F0qPZ7hI98b3h0YTHyCwS8vQy7JKxTnlsVitdb1w&s=4Zj_TqgWdM3vja9QwPoNkwxD-SCldOJlMCyr2iPHam0&e=> to report a bug. Error: Processing of port pymol failed ------------------------------------------------------------------------------------------------------------- ------------------------------------------------------------------------------------------------------------- -- Dr. Javier M. González Instituto de Bionanotecnología del NOA (INBIONATEC-CONICET) Universidad Nacional de Santiago del Estero (UNSE) RN9, Km 1125. Villa El Zanjón. (G4206XCP) Santiago del Estero. 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