Hello, taverna-language pom profile added for android. Another default profile had to be added as wel which you get if you do a normal mvn installl. For the Android Java7 profile use:
mvn -P android clean install If we decide to use this in the app then maybe we should ban Java8+ features from some of the modules Cheers, Ian On 15 September 2016 at 11:48, Stian Soiland-Reyes <[email protected]> wrote: > I think you won't get the annotation content for the mimetype without also > using > https://taverna.incubator.apache.org/javadoc/taverna- > language/org/apache/taverna/scufl2/annotation/AnnotationTools.html > > but that would add dependency on Jena, which latest versions require > Java 7 and I'm not sure if it works well on Android. > > > Perhaps using just the XSD mapping from taverna-scufl2-t2flow would be > a bit easier? You still need to trundle through the annotations which > in .t2flow were serialized in a perhaps awkward way (an annotation > chain which then contains a set of revisioned annotations). > > > > On 15 September 2016 at 11:29, Ian Dunlop <[email protected]> wrote: > > Hello, > > > > @sagar did you use the maven profile idea? If so could you send a pull > > request so that we can keep this for the future. > > > > I've never used the scufl2-api. I did find > > https://taverna.incubator.apache.org/javadoc/taverna- > language/org/apache/taverna/scufl2/api/core/Workflow.html#getInputPorts-- > > which has > > https://taverna.incubator.apache.org/javadoc/taverna- > language/org/apache/taverna/scufl2/api/common/Named.html#getName-- > > I remember from way back that the mime types were hidden inside an > > annotation on the port. So maybe try > > https://taverna.incubator.apache.org/javadoc/taverna- > language/org/apache/taverna/scufl2/api/common/AbstractNamed.html# > getAnnotations-- > > and have a look at what is there. > > > > Cheers, > > > > Ian > > > > On 15 September 2016 at 10:36, Sagar <[email protected]> wrote: > > > >> Hi, > >> > >> I have build taverna-scufl2-api as jar using java 7 . > >> > >> Can you tell me how to use it to get all input and output MIME type and > >> their name? > >> > >> > >> On Mon, Sep 12, 2016 at 6:05 PM, Stian Soiland-Reyes <[email protected]> > >> wrote: > >> > >> > Thanks - from this I would say Taverna Mobile can target KitKat (API > >> > level 19), get 80% share - which would rise by the time we release the > >> > app. > >> > > >> > But that still grounds us on Java 6 features - and even in latest > >> > Android SDK API the package java.nio.file is not there - so robundle > >> > would not work anyway. > >> > > >> > On 8 September 2016 at 19:24, Gale Naylor < > [email protected]> > >> > wrote: > >> > > Here is the distribution of Android API levels in use as of Aug 1: > >> > > https://developer.android.com/about/dashboards/index.html > >> > > > >> > > According to this, only 15% of all Android devices are running API > 23. > >> > > > >> > > > >> > > On Thu, Sep 8, 2016 at 6:29 AM Ian Dunlop <[email protected]> > >> wrote: > >> > > > >> > >> Hello, > >> > >> > >> > >> That page is typically clear as mud! I think it is implying that > jdk 7 > >> > is > >> > >> fine for all API levels but for jdk 8 you need API 23 and (if > special > >> > >> language features required) a different compiler. So as long as we > >> don't > >> > >> use jdk 8 features we will be ok (maybe). I guess that means > >> > >> taverna-language can be used (until we go all lambda crazy). > >> > >> > >> > >> Cheers, > >> > >> > >> > >> Ian > >> > >> > >> > >> On 8 September 2016 at 14:24, Stian Soiland-Reyes < > [email protected]> > >> > >> wrote: > >> > >> > >> > >> > I don't think we use any Java 8 features in taverna-language > (e.g. > >> > >> > Stream or lambdas) - but taverna-robundle use java.nio.Path from > >> Java > >> > >> > 7. I think it should be possible to make a subset of > >> Taverna-language > >> > >> > you need compile for JAva 6 (e.g. taverna-scufl2-api, > >> > >> > taverna-scufl2-t2flow and taverna-scufl2-ucfpackage) - perhaps > as a > >> > >> > Maven profile? > >> > >> > > >> > >> > https://developer.android.com/guide/platform/j8-jack.html says > you > >> > can > >> > >> > use Java 7/8 features from API level 23-24. > >> > >> > > >> > >> > How do we decide which Android API level we want to support..? > >> > >> > > >> > >> > On 8 September 2016 at 10:56, Sagar <[email protected]> > >> > wrote: > >> > >> > > Hi, > >> > >> > > > >> > >> > > I was reading the readme and I found Taverna-language-API will > >> only > >> > >> work > >> > >> > > with JAVA 8 and newer. > >> > >> > > We can't use in taverna-mobile because Android API 16 works > with > >> > JAVA > >> > >> 6. > >> > >> > > > >> > >> > > So, Now provide me with the schema of the .t2flow file. > >> > >> > > > >> > >> > > Thanks > >> > >> > > > >> > >> > > On Thu, Sep 8, 2016 at 2:13 PM, Sagar < > [email protected]> > >> > >> wrote: > >> > >> > > > >> > >> > >> Hi, > >> > >> > >> > >> > >> > >> How can I use the taverna-language API to know what will the > >> inputs > >> > >> and > >> > >> > >> what will the outputs of workflow? > >> > >> > >> > >> > >> > >> I don't get any proper guide or code. > >> > >> > >> > >> > >> > >> Thanks > >> > >> > >> > >> > >> > >> On Fri, Sep 2, 2016 at 6:37 PM, Stian Soiland-Reyes < > >> > [email protected] > >> > >> > > >> > >> > >> wrote: > >> > >> > >> > >> > >> > >>> Yes, you should use taverna-language to load the .t2flow and > >> > inspect > >> > >> > it. > >> > >> > >>> > >> > >> > >>> You should not really need to make any Java beans for it as > the > >> > >> > >>> workflow wouldn't be constructed on the phone (although you > >> could > >> > do > >> > >> > >>> that with the Taverna Language API), but loaded from > $somewhere > >> as > >> > >> > >>> previously saved from the Taverna Workbench or downloaded > from > >> > >> > >>> myExperiment - however you can use the API to inspect the > >> > workflow, > >> > >> > >>> e.g. list the input port names of the main workflow. > >> > >> > >>> > >> > >> > >>> > >> > >> > >>> See: > >> > >> > >>> > >> > >> > >>> https://taverna.incubator.apache.org/download/language/ > >> > >> > >>> > >> > >> > >>> Javadoc: > >> > >> > >>> https://taverna.incubator.apache.org/javadoc/taverna-languag > >> > >> > >>> e/org/apache/taverna/scufl2/api/package-summary.html > >> > >> > >>> > >> > >> > >>> Example: > >> > >> > >>> https://github.com/apache/incubator-taverna-language/blob/ > >> > >> > >>> master/taverna-scufl2-examples/src/main/java/org/apache/ > >> > >> > >>> taverna/examples/ProcessorNames.java > >> > >> > >>> > >> > >> > >>> On 29 August 2016 at 14:39, Ian Dunlop <[email protected] > > > >> > wrote: > >> > >> > >>> > Hello, > >> > >> > >>> > > >> > >> > >>> > There is an xsd for t2flow available in the > taverna-language > >> > module > >> > >> > >>> > https://github.com/apache/incubator-taverna-language/blob/ > >> > >> > >>> master/taverna-scufl2-t2flow/src/main/resources/org/apache/ > >> > >> > >>> taverna/scufl2/translator/t2flow/xsd/t2flow.xsd > >> > >> > >>> > You should be able to re-use taverna-language to parse > t2flow > >> > >> rather > >> > >> > >>> than > >> > >> > >>> > build your own parser. Perhaps using > >> > >> > >>> > https://github.com/apache/incubator-taverna-language/tree/ > >> > >> > >>> master/taverna-scufl2-t2flow. > >> > >> > >>> > No readme though. Maybe some other devs can advise how to > use > >> > it. > >> > >> > >>> > > >> > >> > >>> > Cheers, > >> > >> > >>> > > >> > >> > >>> > Ian > >> > >> > >>> > > >> > >> > >>> > On 28 August 2016 at 18:23, Sagar < > [email protected]> > >> > >> wrote: > >> > >> > >>> > > >> > >> > >>> >> Hi, > >> > >> > >>> >> > >> > >> > >>> >> Is there any predefined tree structure for t2flow xml > file ? > >> > >> > >>> >> > >> > >> > >>> >> if yes, then provide me so that I am able to create java > >> beans > >> > for > >> > >> > it. > >> > >> > >>> >> otherwise, I will create it according to any t2flow xml > file. > >> > >> > >>> >> > >> > >> > >>> >> Please revert ASAP. > >> > >> > >>> >> > >> > >> > >>> >> Thanks > >> > >> > >>> >> > >> > >> > >>> >> On Fri, Aug 26, 2016 at 3:54 PM, Finn Bacall < > >> > >> > >>> [email protected] > >> > >> > >>> >> > > >> > >> > >>> >> wrote: > >> > >> > >>> >> > >> > >> > >>> >> > This wouldn't be that hard to implement, you can get the > >> > unique > >> > >> ID > >> > >> > >>> for > >> > >> > >>> >> the > >> > >> > >>> >> > workflow from the parser gem, see: > >> > >> > >>> >> > > >> > >> > >>> >> > https://github.com/myExperiment/workflow_parser- > >> t2flow/blob/ > >> > >> > >>> >> > master/lib/t2flow/model.rb#L136 > >> > >> > >>> >> > > >> > >> > >>> >> > Then you'd just need to extract it in the parsing > method: > >> > >> > >>> >> > > >> > >> > >>> >> > https://github.com/myGrid/taverna-player-portal/blob/ > >> master/ > >> > >> > >>> >> > app/models/workflow.rb#L40 > >> > >> > >>> >> > > >> > >> > >>> >> > and store it in a new field in the database. > >> > >> > >>> >> > > >> > >> > >>> >> > Cheers, > >> > >> > >>> >> > > >> > >> > >>> >> > Finn > >> > >> > >>> >> > > >> > >> > >>> >> > > >> > >> > >>> >> > On 26/08/2016 09:32, Ian Dunlop wrote: > >> > >> > >>> >> > > >> > >> > >>> >> >> Hello, > >> > >> > >>> >> >> > >> > >> > >>> >> >> I think you are pretty much spot on with your > diagnosis. I > >> > >> agree > >> > >> > it > >> > >> > >>> is a > >> > >> > >>> >> >> bit of a pain that the workflow ids are different. > >> However, > >> > >> each > >> > >> > >>> >> workflow > >> > >> > >>> >> >> does have a unique uuid internally (with t2flow > anyway) so > >> > that > >> > >> > >>> could be > >> > >> > >>> >> >> used to check if a workflow on myexperiment and the > portal > >> > are > >> > >> > the > >> > >> > >>> same. > >> > >> > >>> >> >> Look for the element <dataflow > >> id="0f5e83c1-bbb5-42e7-9ba3- > >> > >> > >>> >> 438f645d3d17" > >> > >> > >>> >> >> role="top"> in a t2flow file. This probably means that > the > >> > >> portal > >> > >> > >>> would > >> > >> > >>> >> >> need an extension to search by workflow uuid. For now I > >> > would > >> > >> > just > >> > >> > >>> treat > >> > >> > >>> >> >> each run as having a unique workflow and we can always > >> > improve > >> > >> it > >> > >> > >>> later. > >> > >> > >>> >> >> > >> > >> > >>> >> >> Cheers, > >> > >> > >>> >> >> > >> > >> > >>> >> >> Ian > >> > >> > >>> >> >> > >> > >> > >>> >> >> On 26 August 2016 at 08:02, Sagar < > >> > [email protected]> > >> > >> > >>> wrote: > >> > >> > >>> >> >> > >> > >> > >>> >> >> Hello, > >> > >> > >>> >> >>> > >> > >> > >>> >> >>> Thank you for providing code. Now, I am working on it. > >> > >> > >>> >> >>> > >> > >> > >>> >> >>> Currently, I have understood that I need following > steps > >> to > >> > >> run > >> > >> > a > >> > >> > >>> >> >>> workflow > >> > >> > >>> >> >>> on taverna player portal > >> > >> > >>> >> >>> > >> > >> > >>> >> >>> 1) Download workflow content. > >> > >> > >>> >> >>> 2) Upload it to taverna player portal. > >> > >> > >>> >> >>> 3) Run it on taverna player portal. > >> > >> > >>> >> >>> 4) Show output of the complete workflow's run. > >> > >> > >>> >> >>> > >> > >> > >>> >> >>> I have also understood that there is no link between > >> > >> > myExperiment > >> > >> > >>> >> >>> workflow > >> > >> > >>> >> >>> and Taverna Player workflow that's why I can't retain > >> > >> > >>> myExperiment's > >> > >> > >>> >> >>> workflow running history on Taverna player portal and > >> also > >> > I > >> > >> > can't > >> > >> > >>> >> search > >> > >> > >>> >> >>> the same workflow in taverna player portal. For each > new > >> > run, > >> > >> I > >> > >> > >>> have to > >> > >> > >>> >> >>> upload it again. > >> > >> > >>> >> >>> > >> > >> > >>> >> >>> > >> > >> > >>> >> >>> If I have understood correct then Please revert back . > >> > >> > >>> >> >>> > >> > >> > >>> >> >>> If not then, Please correct me. > >> > >> > >>> >> >>> > >> > >> > >>> >> >>> Thanks > >> > >> > >>> >> >>> > >> > >> > >>> >> >>> > >> > >> > >>> >> >>> On Wed, Aug 24, 2016 at 8:48 PM, Ian Dunlop < > >> > >> > [email protected]> > >> > >> > >>> >> >>> wrote: > >> > >> > >>> >> >>> > >> > >> > >>> >> >>> Hello, > >> > >> > >>> >> >>>> > >> > >> > >>> >> >>>> This is where the upload code is in the current > mobile > >> > code > >> > >> > >>> >> >>>> https://github.com/apache/ > >> incubator-taverna-mobile/blob/ > >> > >> > >>> >> >>>> 4daa91d3f42b5a4474303fd39c7a7e > >> > c1483cebff/app/src/main/java/ > >> > >> > >>> >> >>>> org/apache/taverna/mobile/fragments/workflowdetails/ > >> > >> > >>> >> >>>> WorkflowdetailFragment.java#L655 > >> > >> > >>> >> >>>> > >> > >> > >>> >> >>>> Cheers, > >> > >> > >>> >> >>>> > >> > >> > >>> >> >>>> Ian > >> > >> > >>> >> >>>> > >> > >> > >>> >> >>>> On 24 August 2016 at 14:40, Ian Dunlop < > >> > [email protected] > >> > >> > > >> > >> > >>> wrote: > >> > >> > >>> >> >>>> > >> > >> > >>> >> >>>> Hello, > >> > >> > >>> >> >>>>> > >> > >> > >>> >> >>>>> That upload code should already be available in the > >> > mobile > >> > >> > app. > >> > >> > >>> >> Larry, > >> > >> > >>> >> >>>>> myself and Finn spent a few hours figuring all that > >> stuff > >> > >> out > >> > >> > >>> last > >> > >> > >>> >> time > >> > >> > >>> >> >>>>> round. > >> > >> > >>> >> >>>>> I have added an API call in the > taverna-player-portal > >> to > >> > get > >> > >> > the > >> > >> > >>> runs > >> > >> > >>> >> >>>>> > >> > >> > >>> >> >>>> for > >> > >> > >>> >> >>> > >> > >> > >>> >> >>>> a user eg /users/1/runs. Pull request waiting in > github > >> > (hint > >> > >> > hint > >> > >> > >>> >> >>>>> > >> > >> > >>> >> >>>> Finn). I > >> > >> > >>> >> >>>> > >> > >> > >>> >> >>>>> even added some tests. > >> > >> > >>> >> >>>>> > >> > >> > >>> >> >>>>> Cheers, > >> > >> > >>> >> >>>>> > >> > >> > >>> >> >>>>> Ian > >> > >> > >>> >> >>>>> > >> > >> > >>> >> >>>>> On 24 August 2016 at 10:57, Finn Bacall < > >> > >> > >>> >> [email protected]> > >> > >> > >>> >> >>>>> wrote: > >> > >> > >>> >> >>>>> > >> > >> > >>> >> >>>>> On 23/08/2016 11:38, Sagar wrote: > >> > >> > >>> >> >>>>>> > >> > >> > >>> >> >>>>>> Hi, > >> > >> > >>> >> >>>>>>> > >> > >> > >>> >> >>>>>>> I think there is some problem as mention below > >> > >> > >>> >> >>>>>>> > >> > >> > >>> >> >>>>>>> 1) How can I upload a workflow using API ? > >> > >> > >>> >> >>>>>>> > >> > >> > >>> >> >>>>>>> here's a gist of some Java code someone wrote to > >> > upload a > >> > >> > >>> workflow > >> > >> > >>> >> to > >> > >> > >>> >> >>>>>> > >> > >> > >>> >> >>>>> the > >> > >> > >>> >> >>>> > >> > >> > >>> >> >>>>> portal: > >> > >> > >>> >> >>>>>> https://gist.github.com/larrytech7/ > >> 957cc61a3bdd82e3e030 > >> > >> > >>> >> >>>>>> > >> > >> > >>> >> >>>>>> Basically the format is: > >> > >> > >>> >> >>>>>> > >> > >> > >>> >> >>>>>> { "workflow" : { "document" : > >> > "data:application/octet- > >> > >> > >>> >> >>>>>> > >> > >> > >>> >> >>>>> stream;base64,<<<Insert > >> > >> > >>> >> >>>> > >> > >> > >>> >> >>>>> base64 encoded workflow here>>>" } } > >> > >> > >>> >> >>>>>> > >> > >> > >>> >> >>>>>> Finn > >> > >> > >>> >> >>>>>> > >> > >> > >>> >> >>>>>> > >> > >> > >>> >> >>>>> > >> > >> > >>> >> >>> > >> > >> > >>> >> >>> -- > >> > >> > >>> >> >>> > >> > >> > >>> >> >>> *With warm regards * > >> > >> > >>> >> >>> *Sincerely yours* > >> > >> > >>> >> >>> Sagar > >> > >> > >>> >> >>> > >> > >> > >>> >> >>> > >> > >> > >>> >> >>> *Student ,(7th Semester )B.Tech IT and mathematical > >> > >> innovation* > >> > >> > >>> >> >>> *Cluster Innovation Centre* > >> > >> > >>> >> >>> *University of Delhi * > >> > >> > >>> >> >>> > >> > >> > >>> >> >>> > >> > >> > >>> >> > > >> > >> > >>> >> > >> > >> > >>> >> > >> > >> > >>> >> -- > >> > >> > >>> >> > >> > >> > >>> >> *With warm regards * > >> > >> > >>> >> *Sincerely yours* > >> > >> > >>> >> Sagar > >> > >> > >>> >> > >> > >> > >>> >> > >> > >> > >>> >> *Student ,(7th Semester )B.Tech IT and mathematical > >> innovation* > >> > >> > >>> >> *Cluster Innovation Centre* > >> > >> > >>> >> *University of Delhi * > >> > >> > >>> >> > >> > >> > >>> > >> > >> > >>> > >> > >> > >>> > >> > >> > >>> -- > >> > >> > >>> Stian Soiland-Reyes > >> > >> > >>> Apache Taverna (incubating), Apache Commons > >> > >> > >>> http://orcid.org/0000-0001-9842-9718 > >> > >> > >>> > >> > >> > >> > >> > >> > >> > >> > >> > >> > >> > >> > >> -- > >> > >> > >> > >> > >> > >> *With warm regards * > >> > >> > >> *Sincerely yours* > >> > >> > >> Sagar > >> > >> > >> > >> > >> > >> > >> > >> > >> *Student ,(7th Semester )B.Tech IT and mathematical > innovation* > >> > >> > >> *Cluster Innovation Centre* > >> > >> > >> *University of Delhi * > >> > >> > >> > >> > >> > >> > >> > >> > > > >> > >> > > > >> > >> > > -- > >> > >> > > > >> > >> > > *With warm regards * > >> > >> > > *Sincerely yours* > >> > >> > > Sagar > >> > >> > > > >> > >> > > > >> > >> > > *Student ,(7th Semester )B.Tech IT and mathematical innovation* > >> > >> > > *Cluster Innovation Centre* > >> > >> > > *University of Delhi * > >> > >> > > >> > >> > > >> > >> > > >> > >> > -- > >> > >> > Stian Soiland-Reyes > >> > >> > http://orcid.org/0000-0001-9842-9718 > >> > >> > > >> > >> > >> > > >> > > >> > > >> > -- > >> > Stian Soiland-Reyes > >> > http://orcid.org/0000-0001-9842-9718 > >> > > >> > >> > >> > >> -- > >> > >> *With warm regards * > >> *Sincerely yours* > >> Sagar > >> > >> > >> *Student ,(7th Semester )B.Tech IT and mathematical innovation* > >> *Cluster Innovation Centre* > >> *University of Delhi * > >> > > > > -- > Stian Soiland-Reyes > http://orcid.org/0000-0001-9842-9718 >
