Linux command works on terminal but not in ipython notebook
I am running pg_dump mydb > ~/Desktop/mydb.dump on my mac shell which works perfectly fine.
But when i use the same command on jupyter notebook with ! or %%bash, it doesn't work, saying that /bin/sh: pg_dump: command not found
I do not have any problem with running other commands on notebook.
What could be the issue?
Thanks in advance.
EDIT & ANSWER:
so, even though i am running jupyter notebook via terminal, interestingly the env variables are not the same it seems like.
i do not know why exactly but instead of pg_dump, if i write the whole path for pg_dump, which i added to ~/.bash_profile on terminal, it works on jupyter notebook as well. in my case it is
/Applications/Postgres.app/Contents/Versions/11/bin/pg_dump mydb > ~/Desktop/mydb.dump
postgresql macos shell jupyter-notebook
asked Nov 15 '18 at 4:00
lorelailorelai
3819
add a comment |
I am running pg_dump mydb > ~/Desktop/mydb.dump on my mac shell which works perfectly fine.
But when i use the same command on jupyter notebook with ! or %%bash, it doesn't work, saying that /bin/sh: pg_dump: command not found
I do not have any problem with running other commands on notebook.
What could be the issue?
Thanks in advance.
EDIT & ANSWER:
so, even though i am running jupyter notebook via terminal, interestingly the env variables are not the same it seems like.
i do not know why exactly but instead of pg_dump, if i write the whole path for pg_dump, which i added to ~/.bash_profile on terminal, it works on jupyter notebook as well. in my case it is
/Applications/Postgres.app/Contents/Versions/11/bin/pg_dump mydb > ~/Desktop/mydb.dump
postgresql macos shell jupyter-notebook
asked Nov 15 '18 at 4:00
lorelailorelai
3819
In one case thepg_dumpexecutable is contained in one of the directories in thePATHenvironment variable, in the other case not.
– Laurenz Albe
Nov 15 '18 at 7:03
add a comment |
I am running pg_dump mydb > ~/Desktop/mydb.dump on my mac shell which works perfectly fine.
But when i use the same command on jupyter notebook with ! or %%bash, it doesn't work, saying that /bin/sh: pg_dump: command not found
I do not have any problem with running other commands on notebook.
What could be the issue?
Thanks in advance.
EDIT & ANSWER:
so, even though i am running jupyter notebook via terminal, interestingly the env variables are not the same it seems like.
i do not know why exactly but instead of pg_dump, if i write the whole path for pg_dump, which i added to ~/.bash_profile on terminal, it works on jupyter notebook as well. in my case it is
/Applications/Postgres.app/Contents/Versions/11/bin/pg_dump mydb > ~/Desktop/mydb.dump
postgresql macos shell jupyter-notebook
asked Nov 15 '18 at 4:00
lorelailorelai
3819
I am running pg_dump mydb > ~/Desktop/mydb.dump on my mac shell which works perfectly fine.
But when i use the same command on jupyter notebook with ! or %%bash, it doesn't work, saying that /bin/sh: pg_dump: command not found
I do not have any problem with running other commands on notebook.
What could be the issue?
Thanks in advance.
EDIT & ANSWER:
so, even though i am running jupyter notebook via terminal, interestingly the env variables are not the same it seems like.
i do not know why exactly but instead of pg_dump, if i write the whole path for pg_dump, which i added to ~/.bash_profile on terminal, it works on jupyter notebook as well. in my case it is
/Applications/Postgres.app/Contents/Versions/11/bin/pg_dump mydb > ~/Desktop/mydb.dump
postgresql macos shell jupyter-notebook
postgresql macos shell jupyter-notebook
asked Nov 15 '18 at 4:00
lorelailorelai
3819
asked Nov 15 '18 at 4:00
lorelailorelai
3819
edited Nov 15 '18 at 14:41
lorelai
asked Nov 15 '18 at 4:00
lorelailorelai
3819
asked Nov 15 '18 at 4:00
lorelailorelai
3819
asked Nov 15 '18 at 4:00
lorelailorelai
3819
3819
In one case thepg_dumpexecutable is contained in one of the directories in thePATHenvironment variable, in the other case not.
– Laurenz Albe
Nov 15 '18 at 7:03
add a comment |
In one case thepg_dumpexecutable is contained in one of the directories in thePATHenvironment variable, in the other case not.
– Laurenz Albe
Nov 15 '18 at 7:03
In one case the
pg_dump executable is contained in one of the directories in the PATH environment variable, in the other case not.– Laurenz Albe
Nov 15 '18 at 7:03
In one case the
pg_dump executable is contained in one of the directories in the PATH environment variable, in the other case not.– Laurenz Albe
Nov 15 '18 at 7:03
add a comment |
1 Answer
1
active
oldest
votes
You should change your $PATH variable when you use bash in ipython notebook
Like:
export PATH=$PATH:/usr/local/bin/pg_dump && pg_dump mydb > ~/Desktop/mydb.dump
answered Nov 15 '18 at 8:02
Mark WhiteMark White
422411
i added that but nothing changed. :/
– lorelai
Nov 15 '18 at 13:54
add a comment |
Your Answer
StackExchange.ifUsing("editor", function ()
StackExchange.using("externalEditor", function ()
StackExchange.using("snippets", function ()
StackExchange.snippets.init();
);
);
, "code-snippets");
StackExchange.ready(function()
var channelOptions =
tags: "".split(" "),
id: "1"
;
initTagRenderer("".split(" "), "".split(" "), channelOptions);
StackExchange.using("externalEditor", function()
// Have to fire editor after snippets, if snippets enabled
if (StackExchange.settings.snippets.snippetsEnabled)
StackExchange.using("snippets", function()
createEditor();
);
else
createEditor();
);
function createEditor()
StackExchange.prepareEditor(
heartbeatType: 'answer',
autoActivateHeartbeat: false,
convertImagesToLinks: true,
noModals: true,
showLowRepImageUploadWarning: true,
reputationToPostImages: 10,
bindNavPrevention: true,
postfix: "",
imageUploader:
brandingHtml: "Powered by u003ca class="icon-imgur-white" href="https://imgur.com/"u003eu003c/au003e",
contentPolicyHtml: "User contributions licensed under u003ca href="https://creativecommons.org/licenses/by-sa/3.0/"u003ecc by-sa 3.0 with attribution requiredu003c/au003e u003ca href="https://stackoverflow.com/legal/content-policy"u003e(content policy)u003c/au003e",
allowUrls: true
,
onDemand: true,
discardSelector: ".discard-answer"
,immediatelyShowMarkdownHelp:true
);
);
Sign up or log in
StackExchange.ready(function ()
StackExchange.helpers.onClickDraftSave('#login-link');
);
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
StackExchange.ready(
function ()
StackExchange.openid.initPostLogin('.new-post-login', 'https%3a%2f%2fstackoverflow.com%2fquestions%2f53312245%2flinux-command-works-on-terminal-but-not-in-ipython-notebook%23new-answer', 'question_page');
);
Post as a guest
Required, but never shown
1 Answer
1
active
oldest
votes
1 Answer
1
active
oldest
votes
active
oldest
votes
active
oldest
votes
You should change your $PATH variable when you use bash in ipython notebook
Like:
export PATH=$PATH:/usr/local/bin/pg_dump && pg_dump mydb > ~/Desktop/mydb.dump
answered Nov 15 '18 at 8:02
Mark WhiteMark White
422411
i added that but nothing changed. :/
– lorelai
Nov 15 '18 at 13:54
add a comment |
You should change your $PATH variable when you use bash in ipython notebook
Like:
export PATH=$PATH:/usr/local/bin/pg_dump && pg_dump mydb > ~/Desktop/mydb.dump
answered Nov 15 '18 at 8:02
Mark WhiteMark White
422411
i added that but nothing changed. :/
– lorelai
Nov 15 '18 at 13:54
add a comment |
You should change your $PATH variable when you use bash in ipython notebook
Like:
export PATH=$PATH:/usr/local/bin/pg_dump && pg_dump mydb > ~/Desktop/mydb.dump
answered Nov 15 '18 at 8:02
Mark WhiteMark White
422411
You should change your $PATH variable when you use bash in ipython notebook
Like:
export PATH=$PATH:/usr/local/bin/pg_dump && pg_dump mydb > ~/Desktop/mydb.dump
answered Nov 15 '18 at 8:02
Mark WhiteMark White
422411
answered Nov 15 '18 at 8:02
Mark WhiteMark White
422411
answered Nov 15 '18 at 8:02
Mark WhiteMark White
422411
answered Nov 15 '18 at 8:02
Mark WhiteMark White
422411
422411
i added that but nothing changed. :/
– lorelai
Nov 15 '18 at 13:54
add a comment |
i added that but nothing changed. :/
– lorelai
Nov 15 '18 at 13:54
i added that but nothing changed. :/
– lorelai
Nov 15 '18 at 13:54
i added that but nothing changed. :/
– lorelai
Nov 15 '18 at 13:54
add a comment |
Thanks for contributing an answer to Stack Overflow!
- Please be sure to answer the question. Provide details and share your research!
But avoid …
- Asking for help, clarification, or responding to other answers.
- Making statements based on opinion; back them up with references or personal experience.
To learn more, see our tips on writing great answers.
Sign up or log in
StackExchange.ready(function ()
StackExchange.helpers.onClickDraftSave('#login-link');
);
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
StackExchange.ready(
function ()
StackExchange.openid.initPostLogin('.new-post-login', 'https%3a%2f%2fstackoverflow.com%2fquestions%2f53312245%2flinux-command-works-on-terminal-but-not-in-ipython-notebook%23new-answer', 'question_page');
);
Post as a guest
Required, but never shown
Sign up or log in
StackExchange.ready(function ()
StackExchange.helpers.onClickDraftSave('#login-link');
);
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
Sign up or log in
StackExchange.ready(function ()
StackExchange.helpers.onClickDraftSave('#login-link');
);
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
Sign up or log in
StackExchange.ready(function ()
StackExchange.helpers.onClickDraftSave('#login-link');
);
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Sign up using Google
Sign up using Facebook
Sign up using Email and Password
Post as a guest
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
Required, but never shown
In one case the
pg_dumpexecutable is contained in one of the directories in thePATHenvironment variable, in the other case not.– Laurenz Albe
Nov 15 '18 at 7:03