[Loris-dev] Imaging Uploader Failing File Verification

[Eli Johnson]

Hi Nicolas,

I do have a custom path for TMPDIR set in the environment file and I have
confirmed that the directory is writable (by user apache in this case since
OS is RHEL) and has plenty of space.

Where do I find what the upload error code number indicates? I saw that it
was 7 but couldn't find where it was being set or what it meant.

Any other recommendations for debugging this? The error log is sparse and
not particularly helpful here. Should I still be looking in
imaging_uploader.class.inc or is this an issue that begins in a parent
library (ie File_Upload.class.inc)?

Best,
Eli

Eli Johnson
Developer/Researcher
Institute of Child Development
University of Minnesota
joh17964 at umn.edu


On Fri, Jul 24, 2020 at 11:03 AM Nicolas Brossard <
nicolasbrossard.mni at gmail.com> wrote:

> Hi Eli,
>
> Looking at what is being passed to $file->setHandlerArgs, I can see that
> the upload error code is set to 7, which means that the system could not
> copy your file in the temporary directory dedicated to uploading files on
> the server. By default, uploaded files are written in /tmp, but you can
> override this by setting variable TMPDIR in <LORIS_MRI_ROOT>/environment.
> I would check that whichever directory you are uploading to has enough free
> space to allow the upload and that user www-data has write permission on
> that directory.
>
> Let me know if that fixes the issue.
>
> Best,
> Nicolas
>
> On Thu, Jul 23, 2020 at 11:50 PM Eli Johnson <joh17964 at umn.edu> wrote:
>
>> Hi,
>>
>> Using LORIS v23.0 on RHEL 7, accessing LORIS front end from Chrome.
>>
>> I'm currently setting up the LORIS-MRI and imaging modules for LORIS. I
>> am running into an issue with the Imaging Uploader on the front end where
>> it is returning the error message "The file TEST111_986793_testing1.zip
>> is not of type .tgz, .tar.gz or .zip." When checking the error-log from
>> the back end I'm seeing...
>>
>> PHP Warning:  mime_content_type(): Empty filename or path in
>> /<basepath>/modules/imaging_uploader/php/imaging_uploader.class.inc on line
>> 646, referer: http://<site>/imaging_uploader
>>
>>
>> Upon further investigation into imaging_uploader.class.inc, the function
>> isCompressed() is being passed an empty string from isValid(). IsValid is
>> passing it $temp_file, defined in $temp_file=$file->fileInfo['tmp_name'],
>> but this is also an empty string. So I'm trying to figure out at what stage
>> 'tmp_name' should be defined for $file->fileInfo but I am struggling to
>> track it down. I checked what was being passed in $file->setHandlerArgs and
>> it contains this:
>>
>> Array
>> (
>>     [IsPhantom] => N
>>     [candID] => 986793
>>     [pSCID] => TEST111
>>     [visitLabel] => testing1
>>     [mriFile] => Array
>>         (
>>             [name] => TEST111_986793_testing1.zip
>>             [type] =>
>>             [tmp_name] =>
>>             [error] => 7
>>             [size] => 0
>>         )
>> )
>>
>>
>> Any suggestions on how to get the uploader working? I have verified that
>> the MRIUploadIncomingPath variable is set appropriately and is an existing,
>> writable directory. I also am able to successfully upload the same zip file
>> from the back end.
>>
>>
>> Thanks,
>> Eli
>>
>>
>> Eli Johnson
>> Developer/Researcher
>> Institute of Child Development
>> University of Minnesota
>> joh17964 at umn.edu
>> _______________________________________________
>> Loris-dev mailing list
>> Loris-dev at bic.mni.mcgill.ca
>> https://mailman.bic.mni.mcgill.ca/mailman/listinfo/loris-dev
>>
>
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