Date: Mon, 11 Apr 2022 15:23:40 -0600 (MDT) From: Dale Scott <dalescott@shaw.ca> To: questions <questions@freebsd.org> Subject: pkg upgrade breaks app in Python venv Message-ID: <2040070998.75155039.1649712220868.JavaMail.zimbra@shaw.ca>
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Hi all, I have had trytond (the server daemon from the www.tryton.org Tryton project) running in a Python venv without issue for several months, but on the weekend did a pkg upgrade and now trytond fails during startup due to what I take to be a library version dependency error related to libxml2. Do modules in a venv need to be upgraded after a system pkg upgrade? Is there a standard workflow I should follow? Thanks for any assistance. Dale --- Dale Scott www.dalescott.net https://ca.linkedin.com/in/dalescott System: dale@starlord:~ % uname -a FreeBSD starlord 13.0-RELEASE-p11 FreeBSD 13.0-RELEASE-p11 #0: Tue Apr 5 18:54:35 UTC 2022 root@amd64-builder.daemonology.net:/usr/obj/usr/src/amd64.amd64/sys/GENERIC amd64 dale@starlord:~ % Error trying to start trytond after upgrading system packages: Traceback (most recent call last): File "env/bin/trytond-cron", line 12, in <module> import trytond.commandline as commandline File "/usr/home/tryton/trytond/env/lib/python3.8/site-packages/trytond/__init__.py", line 8, in <module> File "env/bin/trytond-worker", line 12, in <module> from lxml import etree, objectify ImportError: /usr/local/lib/libxml2.so.2: version LIBXML2_2.4.30 required by /usr/home/tryton/trytond/env/lib/python3.8/site-packages/lxml/etree.cpython-38.so not defined import trytond.commandline as commandline File "/usr/home/tryton/trytond/env/lib/python3.8/site-packages/trytond/__init__.py", line 8, in <module> from lxml import etree, objectify ImportError: /usr/local/lib/libxml2.so.2: version LIBXML2_2.4.30 required by /usr/home/tryton/trytond/env/lib/python3.8/site-packages/lxml/etree.cpython-38.so not defined Traceback (most recent call last): File "env/bin/trytond", line 15, in <module> import trytond.commandline as commandline File "/usr/home/tryton/trytond/env/lib/python3.8/site-packages/trytond/__init__.py", line 8, in <module> from lxml import etree, objectify ImportError: /usr/local/lib/libxml2.so.2: version LIBXML2_2.4.30 required by /usr/home/tryton/trytond/env/lib/python3.8/site-packages/lxml/etree.cpython-38.so not defined Modules installed in venv: (env) [tryton@starlord ~/trytond]$ pip list Package Version ----------------------------- --------- certifi 2021.10.8 charset-normalizer 2.0.9 defusedxml 0.7.1 forex-python 1.8 Genshi 0.7.6 idna 3.3 lxml 4.8.0 passlib 1.7.4 pip 22.0.4 polib 1.1.1 proteus 6.2.2 psycopg2 2.9.3 pycountry 20.7.3 python-dateutil 2.8.2 python-magic 0.4.25 python-sql 1.3.0 python-stdnum 1.17 relatorio 0.10.0 requests 2.27.1 setuptools 56.0.0 simpleeval 0.9.12 simplejson 3.17.6 six 1.16.0 sqlite3 0.0.0 trytond 6.2.6 trytond-account 6.2.5 trytond-account-invoice 6.2.3 trytond-account-invoice-stock 6.2.0 trytond-account-product 6.2.1 trytond-company 6.2.0 trytond-country 6.2.1 trytond-currency 6.2.0 trytond-party 6.2.0 trytond-product 6.2.0 trytond-purchase 6.2.2 trytond-stock 6.2.4 urllib3 1.26.7 Werkzeug 2.0.3 wrapt 1.13.3 (env) [tryton@starlord ~/trytond]$ System pkgs that were upgraded (technically pkgs that _will_ be upgraded, the server is a vm and was reverted to a snapshot from just before the pkg upgrade). dale@starlord:~ % sudo pkg upgrade Updating FreeBSD repository catalogue... FreeBSD repository is up to date. All repositories are up to date. Checking for upgrades (38 candidates): 100% Processing candidates (38 candidates): 100% The following 38 package(s) will be affected (of 0 checked): Installed packages to be UPGRADED: bash: 5.1.12 -> 5.1.16 ca_root_nss: 3.71 -> 3.76 curl: 7.80.0 -> 7.82.0 expat: 2.4.7 -> 2.4.8 fontconfig: 2.13.94_1,1 -> 2.13.94_2,1 git: 2.34.1 -> 2.35.1 glib: 2.70.4,2 -> 2.70.4_2,2 graphviz: 2.44.1_18 -> 2.50.0_1 harfbuzz: 3.2.0 -> 4.2.0 jpeg-turbo: 2.1.1_1 -> 2.1.3 libedit: 3.1.20210216,1 -> 3.1.20210910,1 libgd: 2.3.1,1 -> 2.3.3,1 libglvnd: 1.4.0 -> 1.4.0_1 libgpg-error: 1.43 -> 1.44 libunistring: 0.9.10_1 -> 1.0 libxml2: 2.9.12 -> 2.9.13 libxslt: 1.1.34_2 -> 1.1.35_1 llvm11: 11.0.1_4 -> 11.0.1_5 npm-node17: 6.14.8_1 -> 8.5.2 p5-CGI: 4.53 -> 4.54 p5-GSSAPI: 0.28_1 -> 0.28_2 p5-HTML-Parser: 3.76_1 -> 3.77 p5-HTTP-Message: 6.35 -> 6.36 p5-IO-Socket-SSL: 2.073 -> 2.074 pango: 1.48.11 -> 1.50.6 pcre: 8.45 -> 8.45_1 pcre2: 10.39 -> 10.39_1 postgresql14-client: 14.1 -> 14.2 postgresql14-server: 14.1 -> 14.2 py38-sqlite3: 3.8.12_7 -> 3.8.13_7 python38: 3.8.12_1 -> 3.8.13 readline: 8.1.1 -> 8.1.2 sqlite3: 3.35.5_4,1 -> 3.37.2,1 sudo: 1.9.8p2 -> 1.9.10 tree: 1.8.0 -> 2.0.1 webp: 1.2.1 -> 1.2.2 wget: 1.21.2 -> 1.21.3 Installed packages to be REINSTALLED: libgcrypt-1.9.4 (options changed) Number of packages to be upgraded: 37 Number of packages to be reinstalled: 1 The process will require 6 MiB more space. 177 MiB to be downloaded. Proceed with this action? [y/N]: n dale@starlord:~ %
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