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author | Pjotr Prins | 2022-12-09 10:29:27 -0600 |
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committer | Pjotr Prins | 2022-12-09 10:29:27 -0600 |
commit | b459acef4890b27780e2dbabde48e1d730ede6c4 (patch) | |
tree | 900970a68ca9e99cec5e86991f21217a2911064d /issues/genenetwork1 | |
parent | cfd092d7ac2be68af8ea1ed72d7fbbdaec4ca096 (diff) | |
download | gn-gemtext-b459acef4890b27780e2dbabde48e1d730ede6c4.tar.gz |
Production
Diffstat (limited to 'issues/genenetwork1')
-rw-r--r-- | issues/genenetwork1/gn1-metadata-edit.gmi | 89 |
1 files changed, 89 insertions, 0 deletions
diff --git a/issues/genenetwork1/gn1-metadata-edit.gmi b/issues/genenetwork1/gn1-metadata-edit.gmi new file mode 100644 index 0000000..002f89d --- /dev/null +++ b/issues/genenetwork1/gn1-metadata-edit.gmi @@ -0,0 +1,89 @@ +# GN1 metadata + +If we edit metadata on GN1 it shows a missing PHP. + +The problem can be replitated by logging into GN1 and selecting a dataset. Hit the info button and 'edit' next. + +## Tags + +* assigned: pjotrp +* priority: high +* status: overdue +* type: bug +* keywords: GN1, genenetwork1, annotation + +## Tasks + +* [ ] Update guix, guix-bioinformatics for gn1 +* [ ] Fix PHP view in Guix +* [ ] Fix CKEDITOR in Guix + +## Description + +Turns out that it is a PHP page that is not working. Also CKEDITOR is not visible. + +## Info + +On lily the file + +=> /gnshare/gn/web/infoshare/manager/investigator.html + +is written in PHP(!) + +lily has a configuration setting: + +* AddType application/x-httpd-php .htm .html + +With running PHP 5.5 or 5.6 versions and i added this code to the .htaccess file. Remember both AddHandler and AddType must be present + +``` +AddHandler application/x-httpd-ea-php56 .htm .html .shtml +AddType application/x-httpd-php5 .php +``` + +=> https://www.howtoforge.com/installing-apache2-with-php5-and-mysql-support-on-fedora-18-lamp Some hints here. + +### Building genenetwork1 + +For the python2.4 packages + +``` +gaeta:~/guix-past$ guix build -L ~/guix-past/modules/ -L ~/guix-bioinformatics/ genenetwork1 +``` + +Gets + +``` +`thirdparty/htmlgen/polyfunc.py' -> `/gnu/store/hh21dq96kbmby3dks45ngxd6lzx1lx83-python24-htmlgen-GN1-2.5/lib/python2.4/site-packages/htmlgen//polyfunc.py' +phase `install' succeeded after 0.0 seconds +starting phase `add-install-to-pythonpath' +error: in phase 'add-install-to-pythonpath': uncaught exception: +wrong-type-arg "string-append" "Wrong type (expecting ~A): ~S" ("string" #f) (#f) +phase `add-install-to-pythonpath' failed after 0.0 seconds +Backtrace: + 9 (primitive-load "/gnu/store/5x73mpqayj6xi2ag5l8yblvh4hv…") +In guix/build/gnu-build-system.scm: + 906:2 8 (gnu-build #:source _ #:outputs _ #:inputs _ #:phases . #) +In ice-9/boot-9.scm: + 1752:10 7 (with-exception-handler _ _ #:unwind? _ # _) +In srfi/srfi-1.scm: + 634:9 6 (for-each #<procedure 7fffeff39000 at guix/build/gnu-b…> …) +In ice-9/boot-9.scm: + 1752:10 5 (with-exception-handler _ _ #:unwind? _ # _) +In guix/build/gnu-build-system.scm: + 927:23 4 (_) +In guix/build/python-build-system.scm: + 186:28 3 (add-installed-pythonpath (("python" . "/gnu/store…") …) …) +In unknown file: + 2 (string-append "/gnu/store/hh21dq96kbmby3dks45ngxd6lzx…" …) +In ice-9/boot-9.scm: + 1685:16 1 (raise-exception _ #:continuable? _) + 1685:16 0 (raise-exception _ #:continuable? _) + +ice-9/boot-9.scm:1685:16: In procedure raise-exception: +In procedure string-append: Wrong type (expecting string): #f +builder for `/gnu/store/m4cvh8f83ry9saja47ap7bgzmc58gmk1-python24-htmlgen-GN1-2.5.drv' failed with exit code 1 +build of /gnu/store/m4cvh8f83ry9saja47ap7bgzmc58gmk1-python24-htmlgen-GN1-2.5.drv failed +View build log at '/var/log/guix/drvs/m4/cvh8f83ry9saja47ap7bgzmc58gmk1-python24-htmlgen-GN1-2.5.drv.gz'. +guix build: error: build of `/gnu/store/m4cvh8f83ry9saja47ap7bgzmc58gmk1-python24-htmlgen-GN1-2.5.drv' failed +``` |