[Loris-dev] Update LORIS to v21.0.0

[Ling Ma]

Hi Alfredo,

Since simplexml_load_file is part of php-xml package, I feel that you need
to install php7.2-xml if you are using PHP7.2. In Ubuntu you install this
package with apt-get install php7.2-xml, and make sure that this module is
enabled in Apache2 if you are using Apache2. You can check which module is
enabled via phpinfo() call from a PHP enabled web page, or just check your
Apache2 PHP modules, the later is easier.

Good luck.

Ling Ma

On Wed, Feb 19, 2020 at 6:18 PM Morales Pinzon, Alfredo <
AMORALESPINZON at bwh.harvard.edu> wrote:

> Hi Ling Ma,
>
> Thank you for the information. I would suggest to add this link to each
> release, where the upgrading instructions are listed, and also mention
> upgrading system requirements if needed.
>
> Continuing with the upgrade to v21.0.0. I checked that all the system
> requirements are met. Now, in having this error when executing
> data_dictionary_cleaner.php:
>
> ===
> *lorisadmin at ipmsa-loris*:*/var/www/loris/tools/single_use*$ php
> data_dictionary_cleaner.php
> PHP Fatal error:  Uncaught Error: Call to undefined function
> simplexml_load_file() in
> /var/www/loris/php/libraries/NDB_Config.class.inc:96
> Stack trace:
> #0 /var/www/loris/php/libraries/NDB_Config.class.inc(70):
> NDB_Config->load('/var/www/loris/...')
> #1 /var/www/loris/php/libraries/NDB_Factory.class.inc(118):
> NDB_Config::singleton('/var/www/loris/...')
> #2 /var/www/loris/php/libraries/NDB_Client.class.inc(54):
> NDB_Factory->config('/var/www/loris/...')
> #3 /var/www/loris/tools/generic_includes.php(25):
> NDB_Client->initialize('/var/www/loris/...')
> #4 /var/www/loris/tools/single_use/data_dictionary_cleaner.php(24):
> require_once('/var/www/loris/...')
> #5 {main}
>   thrown in /var/www/loris/php/libraries/NDB_Config.class.inc on line 96
> ===
>
> Any ideas on how to solve this?
>
> Regards,
> Alfredo.
>
> On Feb 19, 2020, at 5:47 PM, Ling Ma <lingyun.ma at mcin.ca> wrote:
>
>         External Email - Use Caution
>
> Hi Alfredo,
>
> If you check this link:
>
> https://github.com/aces/Loris/blob/21.0-release/README.md
>
> and
>
> https://github.com/aces/Loris/blob/22.0-release/README.md
>
> You will see that the system requires:
>
> *System Requirements*
>
>    - Apache *2.4* or higher
>    - MySQL >= 5.7 (or MariaDB >= 10.3)
>    - PHP *7.2* or higher
>    - Composer <https://getcomposer.org/>
>    - NodeJS *8.0* or higher
>    - NPM
>    - make
>
> Please make sure that you have all the latest or recent versions for each
> of them, otherwise you will run into trouble later.
>
> Ling Ma
>
> On Wed, Feb 19, 2020 at 5:29 PM Morales Pinzon, Alfredo <
> AMORALESPINZON at bwh.harvard.edu> wrote:
>
>> Hi Ling Ma,
>>
>> Thank you. I will upgrade to PHP 7.2.
>>
>> BTW, I cannot find the requirements for PHP for v21, I am looking at this
>> link:
>>
>> https://github.com/aces/Loris/releases/tag/v21.0.0
>>
>> Regards,
>> Alfredo.
>>
>>
>> On Feb 19, 2020, at 5:18 PM, Ling Ma <lingyun.ma at mcin.ca> wrote:
>>
>>         External Email - Use Caution
>>
>> Hi Alfredo,
>>
>> The warning is OK to ignore. As to php, please check v21 version
>> requirements, I believe a php minimum 7.1 even 7.2 is required.
>>
>> In fact, PHP 5.6 is no longer supported.
>>
>> Best regards,
>> Ling Ma
>>
>> On Wed., Feb. 19, 2020, 5:07 p.m. Morales Pinzon, Alfredo, <
>> AMORALESPINZON at bwh.harvard.edu> wrote:
>>
>>> Dear Ling and Cécile,
>>>
>>> Thank for your responses.
>>>
>>> I had an issue with "git checkout”, somehow I had to remove some files
>>> before being able to checkout the v21.0.0. That was the reason I didn’t
>>> have the make file. Now that I have it, I have some errors:
>>>
>>> After running “make” I have the following error:
>>>
>>> ===
>>>     *WARNING in configuration*
>>> *    The 'mode' option has not been set, webpack will fallback to
>>> 'production' for this value. Set 'mode' option to 'development' or
>>> 'production' to enable defaults for each environment.*
>>> *    You can also set it to 'none' to disable any default behavior.
>>> Learn more: https://webpack.js.org/concepts/mode/
>>> <https://webpack.js.org/concepts/mode/>*
>>> composer install --no-dev
>>> > mkdir -p project/libraries
>>> Loading composer repositories with package information
>>> Installing dependencies from lock file
>>> Your requirements could not be resolved to an installable set of
>>> packages.
>>>
>>>   Problem 1
>>>     - Installation request for php-http/guzzle6-adapter v2.0.1 ->
>>> satisfiable by php-http/guzzle6-adapter[v2.0.1].
>>>     - php-http/guzzle6-adapter v2.0.1 requires php ^7.1 -> your PHP
>>> version (7.0.33) does not satisfy that requirement.
>>> ===
>>>
>>> Do I have to upgrade PHP to 7.1?
>>>
>>> Thank you again for your help.
>>>
>>> Regards,
>>> Alfredo.
>>>
>>>
>>> On Feb 19, 2020, at 12:15 PM, Cecile Madjar <cecile.madjar at mcin.ca>
>>> wrote:
>>>
>>>         External Email - Use Caution
>>>
>>> Hi Alfredo,
>>>
>>> Sorry to hear you are experiencing issues with the upgrade to 21.0.0.
>>> See below.
>>>
>>> On Tue, Feb 18, 2020 at 4:31 PM Morales Pinzon, Alfredo <
>>> AMORALESPINZON at bwh.harvard.edu> wrote:
>>>
>>>> Hi Cécile,
>>>>
>>>> I am in the process of upgrading LORIS from v20.1.1 to v21.0.0 (and
>>>> then to v22.0.0). I had no issues to get to v20.3.0 but now, moving to
>>>> v21.0.0, I have two issues:
>>>>
>>>> 1. I cannot access the link “Imaging->Imaging Browser” in the LORIS
>>>> website. I get a 500 error. Any ideas on what should I check?
>>>>
>>>
>>> Could you send us what you see in the Apache error file for that 500
>>> error? Although, might be worth focusing on fixing your second issue before
>>> we dive too much into that one.
>>>
>>>
>>>> 2. In the instructions to upgrade to v21.0.0, the second point says:
>>>>
>>>> "Run make from the Loris root directory to update all dependencies.”"
>>>>
>>>> However when I run “make” In the Loris root direction it does nothing.
>>>> Here is the result:
>>>>
>>>> ===
>>>> *lorisadmin at ipmsa-loris*:*/var/www/loris*$ make
>>>> make: *** No targets specified and no makefile found.  Stop.
>>>> ===
>>>>
>>> It that the right directory? Maybe I am missing some files?
>>>>
>>>
>>> Are you sure you are on the 21.0.0 release of LORIS before you run make?
>>> Do you see a Makefile in your /var/www/loris directory? In theory it is
>>> supposed to be there on branch 21.0.0 (
>>> https://github.com/aces/Loris/tree/v21.0.0)
>>>
>>> Hope this helps.
>>>
>>> Cécile
>>>
>>>
>>>> Thank you for your help.
>>>>
>>>> Best,
>>>> Alfredo.
>>>>
>>>
>>>
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>>
>
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