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Message #15203
Re: Posting Metadata in dhis2.
Hi Isaiah,
When you say "extract", you mean you want to take metadata from one
instance of DHIS2 and import to another one? That can be done through the
user interface as described in the user manual:
https://docs.dhis2.org/master/en/user/html/import_export.html
https://play.dhis2.org/2.28/dhis-web-importexport/index.action
You can also load metadata from CSV:
https://docs.dhis2.org/master/en/developer/html/webapi_csv_metadata_import.html
On Thu, Feb 15, 2018 at 7:33 AM, Isaiah Nyabuto <isaiahnyabuto@xxxxxxxxx>
wrote:
> Hi Jason,
>
> Thank you. I am going to look into that keenly.
> And If I may ask, is there a way I can extract dhis2 metadata that can be
> imported directly or with minimal transformations?
>
> This will be helpful. Thank you.
>
> ==========================
> Isaiah Nyabuto
> +254729572616 <+254%20729%20572616>
> Bsc. Health Records Management and Informatics
>
> On Feb 15, 2018 15:16, "Jason Pickering" <jason.p.pickering@xxxxxxxxx>
> wrote:
>
>> Hi Isaiah,
>>
>> You have
>>
>>
>> "parent":"vpiZlB5cdK7"
>>
>>
>> It should be
>>
>> parent":{"id":"vpiZlB5cdK7"}}
>>
>> Be sure your JSON structure is exactly as it should be, otherwise, you
>> will get those kinds of errors. Study the example here
>> <https://raw.githubusercontent.com/jason-p-pickering/dhis2-data-munging/master/ous/ous.json>
>> .
>>
>> Regards,
>> Jason
>>
>>
>>
>> On Thu, Feb 15, 2018 at 1:07 PM, Isaiah Nyabuto <isaiahnyabuto@xxxxxxxxx>
>> wrote:
>>
>>> Thank you for the tip. It still doesn't work.
>>> what does this error mean?
>>>
>>> httr::content(r, "text")
>>>
>>> [1] "{\"httpStatus\":\"Internal Server Error\",\"httpStatusCode\":500
>>> ,\"status\":\"ERROR\",\"message\":\"Can not instantiate value of type
>>> [simple type, class org.hisp.dhis.organisationunit.OrganisationUnit]
>>> from String value ('It7fWcKbcZX'); no single-String constructor/factory
>>> method\\n at [Source: org.apache.catalina.connector.
>>> CoyoteInputStream@1efec811; line: 1, column: 73] (through reference
>>> chain: org.hisp.dhis.organisationunit.OrganisationUnit[\\\"parent\\\
>>> "])\"}"
>>>
>>> Anyone?
>>>
>>> Thank you.
>>> ==========================
>>> Isaiah Nyabuto
>>> +254729572616 <+254%20729%20572616>
>>> Bsc. Health Records Management and Informatics
>>>
>>> On Feb 15, 2018 13:14, "Jason Pickering" <jason.p.pickering@xxxxxxxxx>
>>> wrote:
>>>
>>> All of your fields must have exactly the correct names:
>>>
>>> shortname -> shortName
>>> featuretype-> featureType
>>>
>>> Keep hacking at it! You will get there!
>>>
>>> Regards,
>>> Jason
>>>
>>>
>>> On Thu, Feb 15, 2018 at 11:08 AM, Isaiah Nyabuto <
>>> isaiahnyabuto@xxxxxxxxx> wrote:
>>>
>>>> Hi Jason,
>>>>
>>>> Here is some bit of my post data.
>>>>
>>>> {"organisationUnits":[{"name":"Wikithuki Dispensary","uid":"Bc371uxfYD5","code":"16925","parent":"vpiZlB5cdK7","shortname":"Wikithuki Dispensary","description":"","comment":"","featuretype":"POINT","coordinates":"[37.95263,-0.77819]","url":""},{"name":"Gemifa Medical Clinic","uid":"Z7Lf1n3Fcpi","code":"22907","parent":"mEZBjj4fLBT","shortname":"Gemifa","description":"Clinic","comment":"","featuretype":"NONE","coordinates":"[34.391914,0.059575]","url":""},{"name":"Olympus Medical Clinic","uid":"NAbQdHuaJFK","code":"22906","parent":"PeEcMfBchbr","shortname":"Olympus","description":"Clinic","comment":"","featuretype":"NONE","coordinates":"[34.3994,0.059575]","url":""},{"name":"Masaba Community Health Unit","uid":"tYwHeLSnHyb","code":"600616","parent":"QR2K4k8VKF1","shortname":"Masaba CHU","description":"Community Unit","comment":"","featuretype":"NONE","coordinates":"[34.46411,0.19358]","url":""},{"name":"Gatunga Health Centre","uid":"cmay4WXRmhA","code":"12034","parent":
>>>>
>>>>
>>>> After changing the "uid" to "id", still it doesn't work.
>>>>
>>>> Thank you
>>>>
>>>>
>>>> On Thu, Feb 15, 2018 at 12:14 PM, Jason Pickering <
>>>> jason.p.pickering@xxxxxxxxx> wrote:
>>>>
>>>>> Hi Isaiah,
>>>>>
>>>>> Post a bit of your JSON here from toJSON(list(organisationUnits=new_org),
>>>>> auto_unbox = TRUE)
>>>>>
>>>>> One other problem I noticed as well is this
>>>>>
>>>>> [{"name":"Wikithuki Dispensary","uid":"Bc371uxfYD5"
>>>>>
>>>>>
>>>>> It should be
>>>>>
>>>>> [{"name":"Wikithuki Dispensary","id":"Bc371uxfYD5"
>>>>>
>>>>>
>>>>> Regards,
>>>>> Jason
>>>>>
>>>>>
>>>>> On Thu, Feb 15, 2018 at 10:01 AM, Isaiah Nyabuto <
>>>>> isaiahnyabuto@xxxxxxxxx> wrote:
>>>>>
>>>>>> Hi Jason,
>>>>>>
>>>>>> I get an internal server error code: 500, after trying that. Here is
>>>>>> the response;
>>>>>>
>>>>>> httr::content(r, "text")[1] "{\"httpStatus\":\"Internal Server Error\",\"httpStatusCode\":500,\"status\":\"ERROR\",\"message\":\"Can not instantiate value of type [simple type, class org.hisp.dhis.organisationunit.OrganisationUnit] from String value ('It7fWcKbcZX'); no single-String constructor/factory method\\n at [Source: org.apache.catalina.connector.CoyoteInputStream@1efec811; line: 1, column: 73] (through reference chain: org.hisp.dhis.organisationunit.OrganisationUnit[\\\"parent\\\"])\"}"
>>>>>>
>>>>>>
>>>>>> Thank you.
>>>>>>
>>>>>> On Thu, Feb 15, 2018 at 10:36 AM, Jason Pickering <
>>>>>> jason.p.pickering@xxxxxxxxx> wrote:
>>>>>>
>>>>>>> Hi Isiah,
>>>>>>>
>>>>>>> The reason for it not working (at least at first glance) is that you
>>>>>>> are posing to the /api/metadata endpoint. Thus, you need to tell the server
>>>>>>> what you are trying to import. In this case, its organisation units.
>>>>>>>
>>>>>>> I think changing this to
>>>>>>>
>>>>>>> r <- POST(url, authenticate(dest.user, dest.pass),
>>>>>>> body = toJSON(list(organisationUnits=new_org),
>>>>>>> auto_unbox = TRUE),
>>>>>>> content_type_json())
>>>>>>>
>>>>>>> should work.
>>>>>>>
>>>>>>> The example works because the file
>>>>>>> <https://raw.githubusercontent.com/jason-p-pickering/dhis2-data-munging/master/ous/ous.json>
>>>>>>> looks like this:
>>>>>>>
>>>>>>>
>>>>>>> {"created":"2016-08-10","organisationUnits":[{"id":"u6yjgvIMzKn",...
>>>>>>>
>>>>>>>
>>>>>>> Hope this helps and best regards,
>>>>>>>
>>>>>>> Jason
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> On Thu, Feb 15, 2018 at 6:34 AM, Isaiah Nyabuto <
>>>>>>> isaiahnyabuto@xxxxxxxxx> wrote:
>>>>>>>
>>>>>>>>
>>>>>>>> Dear Jason and Dhis2 Community,
>>>>>>>>
>>>>>>>> I am following your guide on bootstrapping
>>>>>>>> <https://github.com/jason-p-pickering/dhis2-data-munging/blob/master/bootstrap/bootstrap.Rmd>
>>>>>>>> dhis2 with R while trying to import metadata using the API.
>>>>>>>>
>>>>>>>> I do not understand why my metadata is not imported. Here are my
>>>>>>>> steps, any help will be appreciated.
>>>>>>>>
>>>>>>>>
>>>>>>>> head(org) name uid code parent shortname
>>>>>>>> 1 Wikithuki Dispensary Bc371uxfYD5 16925 vpiZlB5cdK7 Wikithuki Dispensary
>>>>>>>> 2 Gemifa Medical Clinic Z7Lf1n3Fcpi 22907 mEZBjj4fLBT Gemifa
>>>>>>>> 3 Olympus Medical Clinic NAbQdHuaJFK 22906 PeEcMfBchbr Olympus
>>>>>>>> 4 Masaba Community Health Unit tYwHeLSnHyb 600616 QR2K4k8VKF1 Masaba CHU
>>>>>>>> 5 Gatunga Health Centre cmay4WXRmhA 12034 IcAegRcGuV6 Gatunga Health Centre
>>>>>>>> 6 Cfw Kimangaru Clinic E52UsoBxJVS 11966 vEAFtHnPDrX CFW Kimangaru Clinic
>>>>>>>> description openingdate closedate comment featuretype coordinates url
>>>>>>>> 1 NA NA POINT [37.95263,-0.77819]
>>>>>>>> 2 Clinic NA NA NONE [34.391914,0.059575]
>>>>>>>> 3 Clinic NA NA NONE [34.3994,0.059575]
>>>>>>>> 4 Community Unit NA NA NONE [34.46411,0.19358]
>>>>>>>> 5 NA NA POINT [37.9423,-0.29656]
>>>>>>>> 6 NA NA POINT [37.53009,-0.54506]
>>>>>>>> contactperson address email phonenumber
>>>>>>>> 1 NA NA NA NA
>>>>>>>> 2 NA NA NA NA
>>>>>>>> 3 NA NA NA NA
>>>>>>>> 4 NA NA NA NA
>>>>>>>> 5 NA NA NA NA
>>>>>>>> 6 NA NA NA NA
>>>>>>>>
>>>>>>>>
>>>>>>>> I followed the following steps to prepare my df for import.
>>>>>>>> 1. Removed all the NAs and columns with entire NAs.
>>>>>>>>
>>>>>>>> head(new_org) name uid code parent shortname
>>>>>>>> 1 Wikithuki Dispensary Bc371uxfYD5 16925 vpiZlB5cdK7 Wikithuki Dispensary
>>>>>>>> 2 Gemifa Medical Clinic Z7Lf1n3Fcpi 22907 mEZBjj4fLBT Gemifa
>>>>>>>> 3 Olympus Medical Clinic NAbQdHuaJFK 22906 PeEcMfBchbr Olympus
>>>>>>>> 4 Masaba Community Health Unit tYwHeLSnHyb 600616 QR2K4k8VKF1 Masaba CHU
>>>>>>>> 5 Gatunga Health Centre cmay4WXRmhA 12034 IcAegRcGuV6 Gatunga Health Centre
>>>>>>>> 6 Cfw Kimangaru Clinic E52UsoBxJVS 11966 vEAFtHnPDrX CFW Kimangaru Clinic
>>>>>>>> description comment featuretype coordinates url
>>>>>>>> 1 POINT [37.95263,-0.77819]
>>>>>>>> 2 Clinic NONE [34.391914,0.059575]
>>>>>>>> 3 Clinic NONE [34.3994,0.059575]
>>>>>>>> 4 Community Unit NONE [34.46411,0.19358]
>>>>>>>> 5 POINT [37.9423,-0.29656]
>>>>>>>> 6 POINT [37.53009,-0.54506]
>>>>>>>>
>>>>>>>>
>>>>>>>> 3. Then post the data as follows.
>>>>>>>>
>>>>>>>> dest.url <- "http://localhost/dhis/";
>>>>>>>> url <- paste0(dest.url, "api/metadata?importStrategy=C
>>>>>>>> REATE&atomicMode=NONE")
>>>>>>>> r <- POST(url, authenticate(dest.user, dest.pass),
>>>>>>>> body = toJSON(new_org, auto_unbox = TRUE),
>>>>>>>> content_type_json())
>>>>>>>> assertthat::assert_that(r$status_code==200)
>>>>>>>>
>>>>>>>> 4. The body looks like.
>>>>>>>>
>>>>>>>> jsonlite::toJSON(me, auto_unbox = TRUE)[{"name":"Wikithuki Dispensary","uid":"Bc371uxfYD5","code":"16925","parent":"vpiZlB5cdK7","shortname":"Wikithuki Dispensary","description":"","comment":"","featuretype":"POINT","coordinates":"[37.95263,-0.77819]","url":""},{"name":"Gemifa Medical Clinic","uid":"Z7Lf1n3Fcpi","code":"22907","parent":"mEZBjj4fLBT","shortname":"Gemifa","description":"Clinic","comment":"","featuretype":"NONE","coordinates":"[34.391914,0.059575]","url":""},{"name":"Olympus Medical Clinic","uid":"NAbQdHuaJFK","code":"22906","parent":"PeEcMfBchbr","shortname":"Olympus","description":"Clinic","comment":"","featuretype":"NONE","coordinates":"[34.3994,0.059575]","url":""},{"name":"Masaba Community Health Unit","uid":"tYwHeLSnHyb","code":"600616","parent":"QR2K4k8VKF1","shortname":"Masaba CHU","description":"Community Unit","comment":"","featuretype":"NONE","coordinates":"[34.46411,0.19358]","url":""},{"name":"Gatunga Health Centre","uid":"cmay4WXRmhA","code":"12034","parent":"IcAegRcGuV6","shortname":"Gatunga Health Centre","description":"","comment":"","featuretype":"POINT","coordinates":"[37.9423,-0.29656]","url":""},{"name":"Cfw Kimangaru Clinic","uid":"E52UsoBxJVS","code":"11966","parent":"vEAFtHnPDrX","shortname":"CFW Kimangaru Clinic","description":"","comment":"","featuretype":"POINT","coordinates":"[37.53009,-0.54506]","url":""}]
>>>>>>>>
>>>>>>>>
>>>>>>>> What could be the problem there? I get status 200 and still it
>>>>>>>> doesn't import.
>>>>>>>>
>>>>>>>>
>>>>>>>> Thank you
>>>>>>>>
>>>>>>>>
>>>>>>>> --
>>>>>>>> ------------------------------------------------------------
>>>>>>>> --------------------
>>>>>>>> Isaiah Nyabuto
>>>>>>>> +254 729 572 616
>>>>>>>> Bsc. Health Records Management & Informatics, JKUAT.
>>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>>
>>>>>>> --
>>>>>>> Jason P. Pickering
>>>>>>> email: jason.p.pickering@xxxxxxxxx
>>>>>>> tel:+46764147049 <076-414%2070%2049>
>>>>>>>
>>>>>>
>>>>>>
>>>>>>
>>>>>> --
>>>>>> ------------------------------------------------------------
>>>>>> --------------------
>>>>>> Isaiah Nyabuto
>>>>>> +254 729 572 616
>>>>>> Bsc. Health Records Management & Informatics, JKUAT.
>>>>>>
>>>>>
>>>>>
>>>>>
>>>>> --
>>>>> Jason P. Pickering
>>>>> email: jason.p.pickering@xxxxxxxxx
>>>>> tel:+46764147049 <076-414%2070%2049>
>>>>>
>>>>
>>>>
>>>>
>>>> --
>>>> ------------------------------------------------------------
>>>> --------------------
>>>> Isaiah Nyabuto
>>>> +254 729 572 616
>>>> Bsc. Health Records Management & Informatics, JKUAT.
>>>>
>>>
>>>
>>>
>>> --
>>> Jason P. Pickering
>>> email: jason.p.pickering@xxxxxxxxx
>>> tel:+46764147049 <076-414%2070%2049>
>>>
>>>
>>>
>>
>>
>> --
>> Jason P. Pickering
>> email: jason.p.pickering@xxxxxxxxx
>> tel:+46764147049 <+46%2076%20414%2070%2049>
>>
>
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--
Knut Staring
Department of Information, Evidence and Research
World Health Organization, Geneva, Switzerland
Office: +41 22 791 3683 Mob1: +33 6 4434 2931 Mob2: +47 9188 0522
Skype: knutstar
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