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<div dir="ltr">Hi Dr. Lee,
<div>Could you kindly clarify -- has this helped, and how can we help resolve your problem? </div>
<div><br>
</div>
<div>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. </div>
<div><br>
</div>
<div>Best, </div>
<div>Christine </div>
</div>
<br>
<div class="gmail_quote">
<div dir="ltr" class="gmail_attr">On Tue, Aug 13, 2019 at 8:43 PM Shen Wang <<a href="mailto:wangshen.mcin@gmail.com">wangshen.mcin@gmail.com</a>> wrote:<br>
</div>
<blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
<div dir="ltr">Hi Yubu,
<div>I saw you error log, it is very helpful. It seems like you didn't create the config.xml in you project folder successfully.</div>
<div>You need to run this [<span style="font-variant-ligatures:no-common-ligatures;background-color:rgba(0,0,0,0.85);color:rgb(242,242,242);font-family:Monaco;font-size:10px">sudo ./install.sh</span><span class="gmail-m_82745259974686510gmail-Apple-converted-space" style="font-variant-ligatures:no-common-ligatures;background-color:rgba(0,0,0,0.85);color:rgb(242,242,242);font-family:Monaco;font-size:10px"> </span>]
in the tools folder. ex. [<span class="gmail-m_82745259974686510gmail-s1" style="font-family:Monaco;font-size:10px;font-variant-ligatures:no-common-ligatures;color:rgb(47,180,29)">install@install-dev</span><span class="gmail-m_82745259974686510gmail-s2" style="font-family:Monaco;font-size:10px;font-variant-ligatures:no-common-ligatures;color:rgb(242,242,242)">:</span><span class="gmail-m_82745259974686510gmail-s3" style="color:rgb(64,11,217);font-family:Monaco;font-size:10px;font-variant-ligatures:no-common-ligatures">/var/www/Loris/tools</span><span class="gmail-m_82745259974686510gmail-s2" style="font-family:Monaco;font-size:10px;font-variant-ligatures:no-common-ligatures;color:rgb(242,242,242)">$<span style="background-color:rgb(0,0,0)">
sudo ./install.sh</span></span>]</div>
<div>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. </div>
<div>
<table class="gmail-m_82745259974686510gmail-highlight gmail-m_82745259974686510gmail-tab-size gmail-m_82745259974686510gmail-js-file-line-container" style="box-sizing:border-box;border-collapse:collapse;border-spacing:0px;color:rgb(36,41,46);font-family:-apple-system,system-ui,"Segoe UI",Helvetica,Arial,sans-serif,"Apple Color Emoji","Segoe UI Emoji","Segoe UI Symbol";font-size:14px">
<tbody style="box-sizing:border-box">
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<td id="gmail-m_82745259974686510gmail-LC175" class="gmail-m_82745259974686510gmail-blob-code gmail-m_82745259974686510gmail-blob-code-inner gmail-m_82745259974686510gmail-js-file-line" style="box-sizing:border-box;padding:0px 10px;line-height:20px;vertical-align:top;font-family:SFMono-Regular,Consolas,"Liberation Mono",Menlo,monospace;font-size:12px;overflow:visible;white-space:pre-wrap">
Please do it manually in your loris folder. sudo chgrp apache project sudo chmod 770 project</td>
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<td id="gmail-m_82745259974686510gmail-L176" class="gmail-m_82745259974686510gmail-blob-num gmail-m_82745259974686510gmail-js-line-number" style="box-sizing:border-box;padding:0px 10px;color:rgba(27,31,35,0.3);font-family:SFMono-Regular,Consolas,"Liberation Mono",Menlo,monospace;font-size:12px;line-height:20px;min-width:50px;text-align:right;vertical-align:top;white-space:nowrap;width:50px">
<br>
</td>
<td id="gmail-m_82745259974686510gmail-LC176" class="gmail-m_82745259974686510gmail-blob-code gmail-m_82745259974686510gmail-blob-code-inner gmail-m_82745259974686510gmail-js-file-line" style="box-sizing:border-box;padding:0px 10px;line-height:20px;vertical-align:top;font-family:SFMono-Regular,Consolas,"Liberation Mono",Menlo,monospace;font-size:12px;overflow:visible;white-space:pre-wrap">
</td>
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<div>Then you need to do [<span style="font-variant-ligatures:no-common-ligatures;background-color:rgba(0,0,0,0.85);color:rgb(242,242,242);font-family:Monaco;font-size:10px">sudo ./install.sh</span><span class="gmail-m_82745259974686510gmail-Apple-converted-space" style="font-variant-ligatures:no-common-ligatures;background-color:rgba(0,0,0,0.85);color:rgb(242,242,242);font-family:Monaco;font-size:10px"> </span>]
, then load the installdb.php again. </div>
<div>Please let me know if you have any questions.</div>
<div>Regards.</div>
<div>Shen</div>
</div>
<br>
<div class="gmail_quote">
<div dir="ltr" class="gmail_attr">On Tue, 13 Aug 2019 at 20:16, 이유부 <<a href="mailto:basilia1123@gmail.com" target="_blank">basilia1123@gmail.com</a>> wrote:<br>
</div>
<blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
<div dir="ltr">Dear Shen,
<div><br>
</div>
<div><br>
</div>
<div>
<div>1 Which version of Loris are you using? </div>
<div>We are using Loris-21.0.0</div>
<div><br>
</div>
<div>2 Mysql version?</div>
<div>The output of mysql -V is</div>
<div>mysql Ver 14.14 Distrib 5.7.27, for Linux (x86_64) using EditLine wrapper<br>
</div>
<div><br>
</div>
<div>3 [<span style="font-family:"Courier New";font-size:14px">sudo tail -f /var/log/apache2/loris-error.log</span>] Please running this in the backend, </div>
<div> then try loading the installdb.php again, with a different database name. Please send us the error message.</div>
<div><br>
</div>
</div>
<div>cat loris-error.log does not show any content however loris-error.log.1 shows the following:</div>
<div><br>
yubu@data:/var/log/apache2$ cat loris-error.log.1</div>
<div><br>
[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:
<a href="http://localhost/installdb.php" target="_blank">http://localhost/installdb.php</a></div>
<div><br>
[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:
<a href="http://localhost/installdb.php" target="_blank">http://localhost/installdb.php</a><br>
[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: <a href="http://localhost/installdb.php" target="_blank">http://localhost/installdb.php</a><br>
</div>
<div><br>
</div>
<div>Further, we accidentally deleted the loris-error.log and loris-error.log.1 files. Is there a way to generate them again?</div>
<div><br>
</div>
<div>Thanks for the prompt reply</div>
<div><br>
</div>
<div>Yours Sincerely,</div>
<div>
<div>
<div dir="ltr" class="gmail-m_82745259974686510gmail-m_-1508933094895809335gmail_signature">
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<div dir="ltr">
<p style="margin:0cm 0cm 0.0001pt"><span lang="EN-US"><font face="arial, helvetica, sans-serif" size="2">======================================================</font></span></p>
<p style="margin:0cm 0cm 0.0001pt"><span lang="EN-US"><font face="arial, helvetica, sans-serif" size="2">Yubu Lee, Ph.D.</font></span></p>
<p style="margin:0cm 0cm 0.0001pt"><span lang="EN-US"><font face="arial, helvetica, sans-serif" size="2">Research Professor, </font></span></p>
<p style="margin:0cm 0cm 0.0001pt"><font face="arial, helvetica, sans-serif" size="2"><span lang="EN-US">Center for Neuroscience Imaging Research, </span>Institute for Basic Science</font></p>
<p style="margin:0cm 0cm 0.0001pt"><span lang="EN-US"><font face="arial, helvetica, sans-serif" size="2"><br>
</font></span></p>
<div><font face="arial, helvetica, sans-serif" size="2">#86332, N Center, SungKyunKwan University </font></div>
<div><font face="arial, helvetica, sans-serif" size="2">2066, Seobu-Ro, Jangan-gu, Suwon, Gyeonggi-do, 16419, Korea</font></div>
<p style="margin:0cm 0cm 0.0001pt"><span lang="EN-US"><font face="arial, helvetica, sans-serif" size="2">E-mail:<span> </span><a href="mailto:basilia1123@gmail.com" target="_blank">basilia1123@gmail.com</a></font></span></p>
<p style="margin:0cm 0cm 0.0001pt"><span lang="EN-US"><font face="arial, helvetica, sans-serif" size="2">Tel: +82-31-299-4411</font></span></p>
<p style="margin:0cm 0cm 0.0001pt"><font face="arial, helvetica, sans-serif" size="2">Fax: +82-31-299-4506</font></p>
<p style="margin:0cm 0cm 0.0001pt"><font face="arial, helvetica, sans-serif" size="2">======================================================</font></p>
</div>
</div>
</div>
</div>
</div>
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<br>
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<br>
<div class="gmail_quote">
<div dir="ltr" class="gmail_attr">2019년 8월 13일 (화) 오후 10:21, Shen Wang <<a href="mailto:wangshen.mcin@gmail.com" target="_blank">wangshen.mcin@gmail.com</a>>님이 작성:<br>
</div>
<blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
<div dir="ltr">Hi <span style="font-family:arial,helvetica,sans-serif">Yubu,</span>
<div>We need more information to debug this issue. </div>
<div>1 Which version of Loris are you using? </div>
<div>2 Mysql version?</div>
<div>3 [<span style="font-family:"Courier New";font-size:14px">sudo tail -f /var/log/apache2/loris-error.log</span>] Please running this in the backend, </div>
<div> then try loading the installdb.php again, with a different database name. Please send us the error message.</div>
<div><br>
</div>
<div>
<div>Your Sincerely,</div>
<div>
<div dir="ltr" class="gmail-m_82745259974686510gmail-m_-1508933094895809335gmail-m_4838571106167897468gmail-m_3323942532302425343gmail_signature">
<div dir="ltr">
<div>
<div dir="ltr">
<div>
<div dir="ltr">Shen <br>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
</div>
<br>
<div class="gmail_quote">
<div dir="ltr" class="gmail_attr">On Mon, 12 Aug 2019 at 22:27, 이유부 <<a href="mailto:basilia1123@gmail.com" target="_blank">basilia1123@gmail.com</a>> wrote:<br>
</div>
<blockquote class="gmail_quote" style="margin:0px 0px 0px 0.8ex;border-left:1px solid rgb(204,204,204);padding-left:1ex">
<div dir="ltr">
<div>Dear Sir/Madam,</div>
<div><br>
</div>
<div>We are currently trying to install LORIS on Ubuntu 18.04 platform following the steps from <a href="https://github.com/aces/Loris/wiki/Installing-Loris-in-Depth" target="_blank">https://github.com/aces/Loris/wiki/Installing-Loris-in-Depth</a></div>
<div><br>
</div>
<div><font size="4">1.</font> Following the above link, we installed the prerequisites mentioned in <a href="https://github.com/aces/Loris/wiki/Installing-Loris-in-Depth#getting-prerequisites" target="_blank">https://github.com/aces/Loris/wiki/Installing-Loris-in-Depth#getting-prerequisites</a>,
which are all verified to be installed normally.</div>
<div><br>
</div>
<div><font size="4">2.</font> We ensured that mySQL credentials are set up properly (as pasted below)</div>
<div>mysql> select host, user, authentication_string from user<br>
-> ;<br>
+-----------+------------------+-------------------------------------------+<br>
| host | user | authentication_string |<br>
+-----------+------------------+-------------------------------------------+<br>
| localhost | root | |<br>
| localhost | mysql.session | *THISISNOTAVALIDPASSWORDTHATCANBEUSEDHERE |<br>
| localhost | mysql.sys | *THISISNOTAVALIDPASSWORDTHATCANBEUSEDHERE |<br>
| localhost | debian-sys-maint | *C9BF7C6E59BFF0FA879E6650D174264C9EE87F25 |<br>
+-----------+------------------+-------------------------------------------+<br>
4 rows in set (0.00 sec)<br>
<br>
mysql> update user set authentication_string=password('yubu') where user='root';<br>
Query OK, 1 row affected, 1 warning (0.00 sec)<br>
Rows matched: 1 Changed: 1 Warnings: 1<br>
<br>
mysql> flush privileges; <br>
Query OK, 0 rows affected (0.01 sec)<br>
<br>
mysql> select host, user, authentication_string from user<br>
-> ;<br>
+-----------+------------------+-------------------------------------------+<br>
| host | user | authentication_string |<br>
+-----------+------------------+-------------------------------------------+<br>
| localhost | root | *E311E16EECE7E8900098CFEB4103D5266A343F5F |<br>
| localhost | mysql.session | *THISISNOTAVALIDPASSWORDTHATCANBEUSEDHERE |<br>
| localhost | mysql.sys | *THISISNOTAVALIDPASSWORDTHATCANBEUSEDHERE |<br>
| localhost | debian-sys-maint | *C9BF7C6E59BFF0FA879E6650D174264C9EE87F25 |<br>
+-----------+------------------+-------------------------------------------+<br>
4 rows in set (0.00 sec)<br>
</div>
<div><br>
</div>
<div><font size="4">3.</font> We then opened <a href="http://localhost/installdb.php" target="_blank">http://localhost/installdb.php</a> and have gotten the login page for LORIS installation and typed the credentials as follows: </div>
<h1 style="box-sizing:border-box;margin:24px 0px 16px;line-height:1.25;border-bottom:1px solid rgb(234,236,239);padding-bottom:0.3em;color:rgb(36,41,46);font-family:-apple-system,BlinkMacSystemFont,"Segoe UI",Helvetica,Arial,sans-serif,"Apple Color Emoji","Segoe UI Emoji","Segoe UI Symbol"">
<div><img src="cid:ii_jz92s9oh0" alt="Screenshot from 2019-08-13 09-14-51.png" width="483" height="272"><br>
</div>
</h1>
<div><font size="4">4.</font> Once we submitted the page we obtained error as follows</div>
<div><br>
</div>
<div>
<div><img src="cid:ii_jz92t2r71" alt="Screenshot from 2019-08-13 09-14-56.png" width="483" height="272"><br>
</div>
</div>
<div><br>
</div>
<div><br>
</div>
<div><br>
</div>
<div>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.</div>
<div><br>
</div>
<div>Thank you.</div>
<div><br>
</div>
<div>Your Sincerely,</div>
<div>
<div dir="ltr" class="gmail-m_82745259974686510gmail-m_-1508933094895809335gmail-m_4838571106167897468gmail-m_3323942532302425343gmail_signature">
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<div dir="ltr">
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<div dir="ltr">
<p style="margin:0cm 0cm 0.0001pt"><span lang="EN-US"><font face="arial, helvetica, sans-serif" size="2">======================================================</font></span></p>
<p style="margin:0cm 0cm 0.0001pt"><span lang="EN-US"><font face="arial, helvetica, sans-serif" size="2">Yubu Lee, Ph.D.</font></span></p>
<p style="margin:0cm 0cm 0.0001pt"><span lang="EN-US"><font face="arial, helvetica, sans-serif" size="2">Research Professor, </font></span></p>
<p style="margin:0cm 0cm 0.0001pt"><font face="arial, helvetica, sans-serif" size="2"><span lang="EN-US">Center for Neuroscience Imaging Research, </span>Institute for Basic Science</font></p>
<p style="margin:0cm 0cm 0.0001pt"><span lang="EN-US"><font face="arial, helvetica, sans-serif" size="2"><br>
</font></span></p>
<div><font face="arial, helvetica, sans-serif" size="2">#86332, N Center, SungKyunKwan University </font></div>
<div><font face="arial, helvetica, sans-serif" size="2">2066, Seobu-Ro, Jangan-gu, Suwon, Gyeonggi-do, 16419, Korea</font></div>
<p style="margin:0cm 0cm 0.0001pt"><span lang="EN-US"><font face="arial, helvetica, sans-serif" size="2">E-mail:<span> </span><a href="mailto:basilia1123@gmail.com" target="_blank">basilia1123@gmail.com</a></font></span></p>
<p style="margin:0cm 0cm 0.0001pt"><span lang="EN-US"><font face="arial, helvetica, sans-serif" size="2">Tel: +82-31-299-4411</font></span></p>
<p style="margin:0cm 0cm 0.0001pt"><font face="arial, helvetica, sans-serif" size="2">Fax: +82-31-299-4506</font></p>
<p style="margin:0cm 0cm 0.0001pt"><font face="arial, helvetica, sans-serif" size="2">======================================================</font></p>
</div>
</div>
</div>
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<div style="font-size:13px;color:rgb(136,136,136)">Shen Wang<br>
</div>
<div style="color:rgb(136,136,136)"><font size="2"><a href="https://github.com/aces/Loris" target="_blank">Loris</a> Developer</font></div>
<div style="font-size:13px;color:rgb(136,136,136)">Montreal Neurological Institute </div>
<div style="font-size:13px;color:rgb(136,136,136)">McGill University</div>
<div style="font-size:13px;color:rgb(136,136,136)"><br>
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<div style="font-size:13px;color:rgb(136,136,136)">Shen Wang<br>
</div>
<div style="color:rgb(136,136,136)"><font size="2"><a href="https://github.com/aces/Loris" target="_blank">Loris</a> Developer</font></div>
<div style="font-size:13px;color:rgb(136,136,136)">Montreal Neurological Institute </div>
<div style="font-size:13px;color:rgb(136,136,136)">McGill University</div>
<div style="font-size:13px;color:rgb(136,136,136)"><br>
</div>
</div>
</div>
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<a href="mailto:christine.rogers@mcgill.ca" target="_blank">christine.rogers@mcgill.ca</a><br>
McGill Centre for Integrative Neuroscience | MCIN.ca</div>
<div>Montreal Neurological Institute</div>
<div>McGill University | Montreal | Canada</div>
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