Searching a DICOM server for metadata - dicom

I want to search the DICOM server. if for example user enters a patient id to serach, then my app populate a table with all the metadata relating to that id , such as id, name, accession number e.tc. if tha study id exists in the dicom server, How can this be done using dcm4chee kit. –

You can use dcm4che3 tool dcm4che-tool-findscu. This code shows you how to do a C-FIND against a PACS (or whatever implementing C-FIND as SCP).
FindSCU.java is quite clear, take a while and don't get missed through Apache Commons CLI code to understand input from console. Most of CLI management code is not in this project, but you can find it in the dcm4che3 tool dcm4che-tool-common project, org.dcm4che3.tool.common.CLIUtils.java class.
Take into account following considerations:
Specify the search level of Query/Retrieve. You can use several search levels in order to match attributes into a PACS. If you look at lines 260:265 of FindSCU.java, you will see that you can manage four different levels: PATIENT|STUDY|SERIES|IMAGE.This will instruct C-FIND SCP how to search matching attributes.
Tell C-FIND SCP what attributes do you want to retrieve. If you want to search studies to be retrieved later, you must ask for 0020, 000D Study​InstanceUID tag.
Of course, add all attributes that you want to populate your table.
Use retrieved 0020, 000D Study​InstanceUID tag value to do the C-GET/C-MOVE operation.
You can see how to configure attribute keys to do C-FIND SCU into CLIUtils.java class that is part of dcm4che3 tool dcm4che-tool-common project. See CLIUtils.addAttributes(Attributes, String[]).
Hope it helps!
Edit
Due to you comment you are using dcm4che2 and that you already have a DicomObject with the search result, if you want to obtain metadata from this DicomObject you must parse it before, using DicomInputStream, and then you can use getXXXX(Tag) from BasiDicomObject, something like this:
DicomObject dcmObj;
DicomInputStream dis = null;
dis = new DicomInputStream(file);
dcmObj = dis.readDicomObject();
String someVar = dcmObj.getString(Tag.SeriesInstanceUID);
Keep in mind, some attributes are inside sequences, and thus you have to search it before.
You can also take a look into dcm4che-tool-dcm2txt, you will see Dcm2Txt.java and in lines 170 and so on, there is how to parse whole dicom object.

If you need some general description about the DICOM network protocol, you could read the "Understanding DICOM with Orthanc" guide, and more specifically the section about C-Find.

Related

Pass search strategy to filter from rest URI

First time using api-platform and Symfony 4 to create an API interface for a MySQL db.
I'm updating an old search interface for the db for which I need to replicate many of the search options. This includes being able to search on a given field using various matching operators/strategies. e.g. starts with, contains exactly equals, etc.
I've set everything up for the api using Annotations.
The #ApiFilter(SearchFilter::class, properties={"fieldname": "strategy"} annotation on my table class works as designed, but I am limited to one-and-only-one strategy per field. I need to be able to pass the strategy to the api search function in the url. something like:
/api/staff?lastname[start]=dav
or
/api/staff?lastname=david&match=contains
or
/api/staff/lastname/son?searchtype=end
would be fine.
I can't figure out how to set this up. Shockingly, to me anyway, this common requirement doesn't seem to be documented at all.
The file CustomSearchFilter.php located at the repo https://github.com/jordonedavidson/custom_search_filter solves this use-case using the
/api/staff?lastname[start]=dav
syntax.
The file was written by Kévin Dunglas (the author of Api Platform) and is presented with his blessing.

Extracting Requirements folder Tree structure from QC using API

I am trying to extract requirements from QC Requirement module. i could extract all requirements of a QC project but i would like to extract selected requirements only. So i need to give folder path and extract requirements accordingly.
Currently i use ReqFactory to extract Reqs from QC. Could you please help me or give me idea to extract requirmeents from selected folder path.
I tried Req Path and father id, but still it does not fulfill my need as some may have multiple sub folders under parent folders.
I assume you like to get all the child requirements of a requirement using the OTA API? The only solution I can offer is a bit clumsy. First you have to get the requirement where you want to start, e.g. "Requirements\Projects\ProjectX". How to achieve that is described in the OTA API Reference as an example of the ReqFactory object ("Find a specified requirement in a specified folder"). Or it is posted in this forum. If you know the ID of the start-requirement you can simply get the requirement with req_factory.Item(id).
When you have your requirement where you want to start, you can use the Find-method of the ReqFactory to get all its children, resp. all Requirement objects starting with the same path as the start-requirement. Here is an example-method in Ruby:
def list_all_child_requirements(start_req)
req_factory = #tdc.ReqFactory
req_path_strange_format = start_req.Field("RQ_REQ_PATH")
child_req_list = req_factory.Find(start_req.ID, "RQ_REQ_PATH", req_path_strange_format, 8)
child_req_list.each do |list_req|
puts list_req
end
end
The req_path_strange_format contains a String in the strange Quality Center notation like "AAAAAB". The Find-method starts from the start-requirement and searches all requirements which path starts with the same path as the path of the start-requirement. The parameter 8 means "starts with pattern" (described in the API Reference, Enum tagTDAPI_REQMODE). I just don't know how to access the Enum using Ruby, thats why the magic 8 is used... The Find-method returns a list with format "ID,NAME". From there it should be no problem to extract the requirements.
Doing the same directly in QC with a VAPI-XP-TEST and VB looks like that:
TDOutput.Clear
Dim reqPathStrangeFormat
Set reqF = tdConnection.ReqFactory
Set startReq = reqF.Item(14) ' ID of parent requirement
reqPathStrangeFormat = startReq.Field("RQ_REQ_PATH")
TDOutput.Print reqPathStrangeFormat
Set childReqList = reqF.Find(startReq.ID, "RQ_REQ_PATH", reqPathStrangeFormat, TDREQMODE_FIND_START_WITH)
For Each childReq in childReqList
TDOutput.Print childReq
Next
This code first prints some strange string "AAAAAB" or something similiar, then a list with "ID,NAME" of the requirements.

How to format Alfresco'API parameter activityFilter in servce user activities feed ?

I need to use that api : http://docs.alfresco.com/4.0/index.jsp?topic=%2Fcom.alfresco.enterprise.doc%2Freferences%2FRESTful-FeedUserfeedGet.html
What I don't know is how to format activityFilter parameter ? What kind of things can I filter ? I'd like to set a max number of results, is it possible ?
I don't know where to find the documentation.
Thank you.
Mathieu.
I don't know where/if the list is documented, but it isn't hard to find out the values you are looking for...
The first place to go is the Web Script Index, which is:
http://localhost:8080/alfresco/service/index
From there you can find that web script, click on its ID, and see its declaration, any accompanying documentation, and, often, the code of the web script controller.
In this case, the controller is Java-based, so you can get its class and go look at that in the source.
Often, that's not convenient. So the next thing to do is to realize that Alfresco Share makes use of the same web script. If you turn on Firebug and go to the Alfresco Share Global Dashboard you can see the activity feed dashlet. As you change the second dropdown (the one that defaults to "all items") you will see your browser doing GETs against that web script. By choosing the various choices available in the dashlet, you'll see that the values it uses to filter activities are:
org.alfresco.comments.comment-created
org.alfresco.comments.comment-updated
org.alfresco.documentlibrary.file-added
org.alfresco.documentlibrary.file-deleted
org.alfresco.documentlibrary.file-updated
org.alfresco.documentlibrary.files-added
org.alfresco.documentlibrary.files-deleted
org.alfresco.documentlibrary.files-updated
org.alfresco.profile.status-changed
org.alfresco.site.user-joined
org.alfresco.site.user-left
org.alfresco.site.user-role-changed
You can pass more than one of these at-a-time to the web script by separating each with an escaped comma (%2C).
There may be more filters available, but those are the ones used by the activity feed dashlet on the global dashboard.

What is job.get() and job.getBoolean() in mapreduce

I am working on pdf document clustering over hadoop so I am learning mapreduce by reading some examples on internet.In wordcount examples have lines
job.get("map.input.file")
job.getboolean()
What is function of these functions?what is exactly map.input.file where is it to set? or is it just a name given to input folder?
Please post answer if anyone know.
For code see the following link
wordcount 2.0 example=http://hadoop.apache.org/docs/r1.0.4/mapred_tutorial.html
These are job configurations. i.e. set of configurations which are passed on to each mapper and reducer. Now, these configurations consist of well defined mapreduce/hadoop related configurations as well as user-defined configurations.
In your case, map.input.file is a pre-defined configuration and yes it is set to a comma separated list of all the paths you have set as input path.
While wordcount.skip.patterns is a custom configuration which is set as per user's input, and you may see this configuration to be set in run() as follows:
conf.setBoolean("wordcount.skip.patterns", true);
As for when to use get and when to use getBoolean, it should be self-explanatory, as whenever you want to set a value of type boolean you will use getBoolean and setBoolean to get and set the specific config value respectively. Similarly you have specific methods for other data types as well. If it is string then you may use get().

Attempting to deploy a binary to a location where a different binary is already stored

When I am publishing my page from tridio 2009, I am getting the error below:
Destination with name 'FTP=[Host=servername, Location=\RET, Password=******, Port=21, UserName=retftp]' reported the following failure:
A processing error occurred processing a transport package Attempting to deploy a binary [Binary id=tcm:553-974947-16 variantId= sg= path=/Images/image_thumbnail01.jpg] to a location where a different binary is already stored Existing binary: tcd:pub[553]/binarymeta[974950]
Below is my code snippet
Component bigImageComp = th.GetComponentValue("bigimage", imageMetaFields);
string bigImagefileName = string.Empty;
string bigImagePath = string.Empty;
bigImagefileName = bigImageComp.BinaryContent.Filename;
bigImagePath = m_Engine.AddBinary(bigImageComp.Id, TcmUri.UriNull, null, bigImageComp.BinaryContent.GetByteArray(), Path.GetFileName(bigImagefileName));
imageBigNode.InnerText = bigImagePath;
Please suggest
Chris Summers addressed this on his blog. Have a read of the article - http://www.urbancherry.net/blogengine/post/2010/02/09/Unique-binary-filenames-for-SDL-Tridion-Multimedia-Components.aspx
Generally in Tridion Content Delivery we can only keep one version of a Component. To get multiple "versions" of a MMC we have to publish MMC as variants. By this way we can produce as many variants as we need via templating.
You can refer below article for more detail:
http://yatb.mitza.net/2012/03/publishing-images-as-variants.html#!/2012/03/publishing-images-as-variants.html
When adding binaries you must ensure that the file and it's metadata is unique. If one of the values e.g. the filename appears to be the same but the rest of the metadata does not match, then deployment will fail.
In the given example (as Nuno points out) the binary 910 is trying to deploy over binary 703. The filename is the same but the binary is identified to be not the same (in the case a different ID from the same publication). For this example you will need to rename one of the binaries (either the file itself or change the path) and everything will be fine.
Other scenarios can be that the same image is used from two different templates and the template id is used as the varient ID. If this is the case it is the same image BUT the varient ID check fails so to avoid overwriting the same image the deployer fails it.
Often unpublishing can help, however, the image is only removed when ALL references to it are removed. So if it is used from more than one place there are more open references.
This is logical protection from the deployer. You would not want the wrong image replacing another and either upsetting the layout or potentially changing the content to another meeting (think advertising banner).
This is actual cause and reason for above problem (Something got from forum)

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