[
https://issues.apache.org/jira/browse/AIRAVATA-3268?page=com.atlassian.jira.plugin.system.issuetabpanels:comment-tabpanel&focusedCommentId=16979647#comment-16979647
]
Marcus Christie edited comment on AIRAVATA-3268 at 11/22/19 12:21 PM:
----------------------------------------------------------------------
There's something weird going on with the dev api server. {{false}} and {{0}}
are getting serialized to null. Here the ApplicationInterfaceDescription when
I print it out in the Django portal:
{noformat}
ApplicationInterfaceDescription(
applicationInterfaceId='Gaussian16_867b571d-3825-4657-b246-6b4cf5369a07',
applicationName='Gaussian16',
applicationDescription='Gaussian computes molecular electronic properties
using ab inito and dft techniques',
applicationModules=['Gaussian16_1b577ccc-3d34-4a69-adf1-9dcf5146d040'],
applicationInputs=[
InputDataObjectType(name='Gaussian-Input-File', value='gaussian.com', type=3,
applicationArgument='', standardInput=None, userFriendlyDescription='Gaussian
input file specifying desired calculation type, model chemistry, molecular
system and other parameters.', metaData=None, inputOrder=None, isRequired=True,
requiredToAddedToCommandLine=True, dataStaged=None, storageResourceId=None,
isReadOnly=None, overrideFilename='gaussian.com'),
InputDataObjectType(name='Optional Input Files', value=None, type=4,
applicationArgument=None, standardInput=None, userFriendlyDescription=None,
metaData=None, inputOrder=1, isRequired=None,
requiredToAddedToCommandLine=None, dataStaged=None, storageResourceId=None,
isReadOnly=None, overrideFilename=None)],
applicationOutputs=[
OutputDataObjectType(name='Gaussian-Application-Output',
value='gaussian.log', type=3, applicationArgument='', isRequired=True,
requiredToAddedToCommandLine=None, dataMovement=True, location=None,
searchQuery=None, outputStreaming=None, storageResourceId=None, metaData=None),
OutputDataObjectType(name='Gaussian-Chekpoint-File', value='*.chk', type=4,
applicationArgument='', isRequired=True, requiredToAddedToCommandLine=None,
dataMovement=None, location=None, searchQuery=None, outputStreaming=None,
storageResourceId=None, metaData=None),
OutputDataObjectType(name='Gaussian-Standar-Out', value='', type=5,
applicationArgument='', isRequired=True, requiredToAddedToCommandLine=None,
dataMovement=None, location=None, searchQuery=None, outputStreaming=None,
storageResourceId=None, metaData=None),
OutputDataObjectType(name='Gaussian-Standard-Error', value='', type=6,
applicationArgument='', isRequired=True, requiredToAddedToCommandLine=None,
dataMovement=None, location=None, searchQuery=None, outputStreaming=None,
storageResourceId=None, metaData=None)],
archiveWorkingDirectory=True,
hasOptionalFileInputs=True)
{noformat}
Notice that for the first input
{noformat}
InputDataObjectType(name='Gaussian-Input-File', value='gaussian.com', type=3,
applicationArgument='', standardInput=None, userFriendlyDescription='Gaussian
input file specifying desired calculation type, model chemistry, molecular
system and other parameters.', metaData=None, inputOrder=None, isRequired=True,
requiredToAddedToCommandLine=True, dataStaged=None, storageResourceId=None,
isReadOnly=None, overrideFilename='gaussian.com'),
{noformat}
{{inputOrder}} is None even though it is 0 in the database. {{dataStaged}} and
{{isReadOnly}} are also None even though they should be false.
{noformat}
MariaDB [app_catalog]> select * from APPLICATION_INPUT where INTERFACE_ID =
@iid and INPUT_KEY = 'Gaussian-Input-File'\G
*************************** 1. row ***************************
INTERFACE_ID: Gaussian16_867b571d-3825-4657-b246-6b4cf5369a07
INPUT_KEY: Gaussian-Input-File
INPUT_VALUE: gaussian.com
DATA_TYPE: URI
METADATA: NULL
APP_ARGUMENT:
STANDARD_INPUT: 0
USER_FRIENDLY_DESC: Gaussian input file specifying desired calculation
type, model chemistry, molecular system and other parameters.
INPUT_ORDER: 0
IS_REQUIRED: 1
REQUIRED_TO_COMMANDLINE: 1
DATA_STAGED: 0
IS_READ_ONLY: 0
OVERRIDE_FILENAME: gaussian.com
1 row in set (0.01 sec)
{noformat}
was (Author: marcuschristie):
There's something weird going on with the dev api server. {{false}} and {{0}}
are getting serialized to null. Here the ApplicationInterfaceDescription when
I print it out in the Django portal:
{noformat}
ApplicationInterfaceDescription(
applicationInterfaceId='Gaussian16_867b571d-3825-4657-b246-6b4cf5369a07',
applicationName='Gaussian16',
applicationDescription='Gaussian computes molecular electronic properties
using ab inito and dft techniques',
applicationModules=['Gaussian16_1b577ccc-3d34-4a69-adf1-9dcf5146d040'],
applicationInputs=[
InputDataObjectType(name='Gaussian-Input-File', value='gaussian.com', type=3,
applicationArgument='', standardInput=None, userFriendlyDescription='Gaussian
input file specifying desired calculation type, model chemistry, molecular
system and other parameters.', metaData=None, inputOrder=None, isRequired=True,
requiredToAddedToCommandLine=True, dataStaged=None, storageResourceId=None,
isReadOnly=None, overrideFilename='gaussian.com'),
InputDataObjectType(name='Optional Input Files', value=None, type=4,
applicationArgument=None, standardInput=None, userFriendlyDescription=None,
metaData=None, inputOrder=1, isRequired=None,
requiredToAddedToCommandLine=None, dataStaged=None, storageResourceId=None,
isReadOnly=None, overrideFilename=None)],
applicationOutputs=[
OutputDataObjectType(name='Gaussian-Application-Output',
value='gaussian.log', type=3, applicationArgument='', isRequired=True,
requiredToAddedToCommandLine=None, dataMovement=True, location=None,
searchQuery=None, outputStreaming=None, storageResourceId=None, metaData=None),
OutputDataObjectType(name='Gaussian-Chekpoint-File', value='*.chk', type=4,
applicationArgument='', isRequired=True, requiredToAddedToCommandLine=None,
dataMovement=None, location=None, searchQuery=None, outputStreaming=None,
storageResourceId=None, metaData=None),
OutputDataObjectType(name='Gaussian-Standar-Out', value='', type=5,
applicationArgument='', isRequired=True, requiredToAddedToCommandLine=None,
dataMovement=None, location=None, searchQuery=None, outputStreaming=None,
storageResourceId=None, metaData=None),
OutputDataObjectType(name='Gaussian-Standard-Error', value='', type=6,
applicationArgument='', isRequired=True, requiredToAddedToCommandLine=None,
dataMovement=None, location=None, searchQuery=None, outputStreaming=None,
storageResourceId=None, metaData=None)],
archiveWorkingDirectory=True,
hasOptionalFileInputs=True)
{noformat}
> BUG: The input file name cannot be changed using value field content in
> application interface
> ---------------------------------------------------------------------------------------------
>
> Key: AIRAVATA-3268
> URL: https://issues.apache.org/jira/browse/AIRAVATA-3268
> Project: Airavata
> Issue Type: Sub-task
> Components: Django Portal
> Affects Versions: 0.18
> Reporter: Eroma
> Assignee: Marcus Christie
> Priority: Critical
> Fix For: 0.19
>
>
> 1. When creating application inputs in Interface tab user can have the
> uploading file name changed to the value given in "Value" field.
> 2. This new assigned name will be the one that get added to the job script as
> well as the name of the file when the file is in the compute resource working
> directory.
> h5. TODO
> - [x] model/db changes
> - [x] db migration script to copy input.value to input.overrideFilename
> - [ ] Django frontend changes
--
This message was sent by Atlassian Jira
(v8.3.4#803005)
