[Loris-dev] LORIS installation inquiry -- regarding
Christine Rogers, Ms.
christine.rogers at mcgill.ca
Tue Aug 20 16:01:08 EDT 2019
Hi Dr. Lee,
Could you kindly clarify -- has this helped, and how can we help resolve your problem?
Also, just to let you know, for the 21.0.0 release, running the install.sh script with sudo will cause errors. We are working on clarifying the messaging of the install script for the next bugfix release.
Best,
Christine
On Tue, Aug 13, 2019 at 8:43 PM Shen Wang <wangshen.mcin at gmail.com<mailto:wangshen.mcin at gmail.com>> wrote:
Hi Yubu,
I saw you error log, it is very helpful. It seems like you didn't create the config.xml in you project folder successfully.
You need to run this [sudo ./install.sh ] in the tools folder. ex. [install at install-dev:/var/www/Loris/tools$ sudo ./install.sh]
Then check if project/confilg.xml file exists. if it can't create the project folder and config.xml, it is definitely your ubuntu permission issue.
Please do it manually in your loris folder. sudo chgrp apache project sudo chmod 770 project
Then you need to do [sudo ./install.sh ] , then load the installdb.php again.
Please let me know if you have any questions.
Regards.
Shen
On Tue, 13 Aug 2019 at 20:16, 이유부 <basilia1123 at gmail.com<mailto:basilia1123 at gmail.com>> wrote:
Dear Shen,
1 Which version of Loris are you using?
We are using Loris-21.0.0
2 Mysql version?
The output of mysql -V is
mysql Ver 14.14 Distrib 5.7.27, for Linux (x86_64) using EditLine wrapper
3 [sudo tail -f /var/log/apache2/loris-error.log] Please running this in the backend,
then try loading the installdb.php again, with a different database name. Please send us the error message.
cat loris-error.log does not show any content however loris-error.log.1 shows the following:
yubu at data:/var/log/apache2$ cat loris-error.log.1
[Tue Aug 13 09:12:41.214417 2019] [php7:error] [pid 17930] [client ::1:58960] PHP Fatal error: Uncaught ConfigurationException: Config file config.xml does not exist in the defined locations. in /var/www/loris/php/libraries/NDB_Config.class.inc:139\nStack trace:\n#0 /var/www/loris/php/libraries/NDB_Config.class.inc(66): NDB_Config->configFilePath()\n#1 /var/www/loris/php/libraries/NDB_Factory.class.inc(118): NDB_Config::singleton(NULL)\n#2 /var/www/loris/php/libraries/NDB_Client.class.inc(54): NDB_Factory->config(NULL)\n#3 /var/www/loris/htdocs/index.php(27): NDB_Client->initialize()\n#4 {main}\n thrown in /var/www/loris/php/libraries/NDB_Config.class.inc on line 139, referer: http://localhost/installdb.php
[Tue Aug 13 09:14:53.843582 2019] [php7:notice] [pid 17932] [client ::1:58992] SQLSTATE[HY000] [1698] Access denied for user 'root'@'localhost', referer: http://localhost/installdb.php
[Tue Aug 13 09:14:53.843708 2019] [php7:error] [pid 17932] [client ::1:58992] PHP Fatal error: Uncaught Error: Call to a member function exec() on null in /var/www/loris/php/installer/Installer.class.inc:374\nStack trace:\n#0 /var/www/loris/php/installer/Installer.class.inc(235): LORIS\\Installer\\Installer->_sourceSchemaFile(Object(LORIS\\Installer\\Database), '00-schema.sql')\n#1 /var/www/loris/htdocs/installdb.php(109): LORIS\\Installer\\Installer->sourceSchema(Array)\n#2 {main}\n thrown in /var/www/loris/php/installer/Installer.class.inc on line 374, referer: http://localhost/installdb.php
Further, we accidentally deleted the loris-error.log and loris-error.log.1 files. Is there a way to generate them again?
Thanks for the prompt reply
Yours Sincerely,
======================================================
Yubu Lee, Ph.D.
Research Professor,
Center for Neuroscience Imaging Research, Institute for Basic Science
#86332, N Center, SungKyunKwan University
2066, Seobu-Ro, Jangan-gu, Suwon, Gyeonggi-do, 16419, Korea
E-mail: basilia1123 at gmail.com<mailto:basilia1123 at gmail.com>
Tel: +82-31-299-4411
Fax: +82-31-299-4506
======================================================
2019년 8월 13일 (화) 오후 10:21, Shen Wang <wangshen.mcin at gmail.com<mailto:wangshen.mcin at gmail.com>>님이 작성:
Hi Yubu,
We need more information to debug this issue.
1 Which version of Loris are you using?
2 Mysql version?
3 [sudo tail -f /var/log/apache2/loris-error.log] Please running this in the backend,
then try loading the installdb.php again, with a different database name. Please send us the error message.
Your Sincerely,
Shen
On Mon, 12 Aug 2019 at 22:27, 이유부 <basilia1123 at gmail.com<mailto:basilia1123 at gmail.com>> wrote:
Dear Sir/Madam,
We are currently trying to install LORIS on Ubuntu 18.04 platform following the steps from https://github.com/aces/Loris/wiki/Installing-Loris-in-Depth
1. Following the above link, we installed the prerequisites mentioned in https://github.com/aces/Loris/wiki/Installing-Loris-in-Depth#getting-prerequisites, which are all verified to be installed normally.
2. We ensured that mySQL credentials are set up properly (as pasted below)
mysql> select host, user, authentication_string from user
-> ;
+-----------+------------------+-------------------------------------------+
| host | user | authentication_string |
+-----------+------------------+-------------------------------------------+
| localhost | root | |
| localhost | mysql.session | *THISISNOTAVALIDPASSWORDTHATCANBEUSEDHERE |
| localhost | mysql.sys | *THISISNOTAVALIDPASSWORDTHATCANBEUSEDHERE |
| localhost | debian-sys-maint | *C9BF7C6E59BFF0FA879E6650D174264C9EE87F25 |
+-----------+------------------+-------------------------------------------+
4 rows in set (0.00 sec)
mysql> update user set authentication_string=password('yubu') where user='root';
Query OK, 1 row affected, 1 warning (0.00 sec)
Rows matched: 1 Changed: 1 Warnings: 1
mysql> flush privileges;
Query OK, 0 rows affected (0.01 sec)
mysql> select host, user, authentication_string from user
-> ;
+-----------+------------------+-------------------------------------------+
| host | user | authentication_string |
+-----------+------------------+-------------------------------------------+
| localhost | root | *E311E16EECE7E8900098CFEB4103D5266A343F5F |
| localhost | mysql.session | *THISISNOTAVALIDPASSWORDTHATCANBEUSEDHERE |
| localhost | mysql.sys | *THISISNOTAVALIDPASSWORDTHATCANBEUSEDHERE |
| localhost | debian-sys-maint | *C9BF7C6E59BFF0FA879E6650D174264C9EE87F25 |
+-----------+------------------+-------------------------------------------+
4 rows in set (0.00 sec)
3. We then opened http://localhost/installdb.php and have gotten the login page for LORIS installation and typed the credentials as follows:
[Screenshot from 2019-08-13 09-14-51.png]
4. Once we submitted the page we obtained error as follows
[Screenshot from 2019-08-13 09-14-56.png]
We really do not know how to proceed further from this point onward. Kindly let us know how to proceed further in order to get the LORIS installed.
Thank you.
Your Sincerely,
======================================================
Yubu Lee, Ph.D.
Research Professor,
Center for Neuroscience Imaging Research, Institute for Basic Science
#86332, N Center, SungKyunKwan University
2066, Seobu-Ro, Jangan-gu, Suwon, Gyeonggi-do, 16419, Korea
E-mail: basilia1123 at gmail.com<mailto:basilia1123 at gmail.com>
Tel: +82-31-299-4411
Fax: +82-31-299-4506
======================================================
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--
Shen Wang
Loris<https://github.com/aces/Loris> Developer
Montreal Neurological Institute
McGill University
--
Shen Wang
Loris<https://github.com/aces/Loris> Developer
Montreal Neurological Institute
McGill University
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Loris-dev at bic.mni.mcgill.ca<mailto:Loris-dev at bic.mni.mcgill.ca>
https://mailman.bic.mni.mcgill.ca/mailman/listinfo/loris-dev
--
christine.rogers at mcgill.ca<mailto:christine.rogers at mcgill.ca>
McGill Centre for Integrative Neuroscience | MCIN.ca
Montreal Neurological Institute
McGill University | Montreal | Canada
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