FHIR Chat · US Core QA Issue #4- bad link for rel ref in bundle

I am getting this bad link error...

The link 'AllergyIntolerance/79613' for "AllergyIntolerance/79613" cannot be resolved

I double checked the rules for resolving references in bundles reference using the bundle example in the base spec and I can't see what is wrong ...here is a snippet...

resourceType: Bundle
id: c887e62f-6166-419f-8268-b5ecd6c7b901
meta:
  lastUpdated: '2019-07-09T18:49:01.235+00:00'
type: searchset
total: 1
link:
  - relation: self
    url: >-
      http://example.org/fhir/AllergyIntolerance?_revinclude=Provenance%3Atarget&patient=Examples
entry:
  - fullUrl: 'http://example.org/fhir/AllergyIntolerance/79613'  # <-----referenced resource here
    resource:
      resourceType: AllergyIntolerance
      id: '79613'
      ...
  - fullUrl: 'http://example.org/fhir/Provenance/79614'
    resource:
      resourceType: Provenance
      id: '79614'
      ...
      target:
        - reference: AllergyIntolerance/79613  #<--- link to resource in bundle
      recorded: '2019-07-09T15:26:23.217+00:00'
     ....

Grahame Grieve (Jul 03 2020 at 20:52):

looks like it should be right

Eric Haas (Jul 03 2020 at 20:56):

I will run in my test ig and see...

Eric Haas (Jul 03 2020 at 21:46):

Oddly I can run this example and no link errors

But my example above which I revalidated has the above link error as does this contained reference for this file:

resourceType: MedicationRequest
id: uscore-mo2
meta:
  profile:
    - 'http://hl7.org/fhir/us/core/StructureDefinition/us-core-medicationrequest'
contained:
  - resourceType: Medication
    id: med2  #<----
    code:
      coding:
        - system: 'http://www.nlm.nih.gov/research/umls/rxnorm'
          code: '582620'
          display: 'Nizatidine 15 MG/ML Oral Solution [Axid]'
      text: 'Nizatidine 15 MG/ML Oral Solution [Axid]'
status: active
intent: order
medicationReference:
  reference: '#med2' #<-----
  display: 'Nizatidine 15 MG/ML Oral Solution [Axid]'
subject:
  reference: Patient/example
  display: Amy Shaw
authoredOn: '2008-04-05'
requester:
  reference: Practitioner/practitioner-1
  display: 'Ronald Bone, MD'
dosageInstruction:
  - text: 10 mL bid
    timing:
      repeat:
        boundsPeriod:
          start: '2008-04-05'
dispenseRequest:
  numberOfRepeatsAllowed: 1
  quantity:
    value: 480
    unit: mL
    system: 'http://unitsofmeasure.org'
    code: mL
  expectedSupplyDuration:
    value: 30
    unit: days
    system: 'http://unitsofmeasure.org'
    code: d

which give the following error:

The link '#med2' for "Nizatidine 15 MG/ML Oral Solution [Axid]. Generated Summary: unknown resource contained" cannot be resolved (valid targets: [ig-status, segment-header, publish-box, root, stripe, segment-footer, segment-post-footer, segment-navbar, segment-content, segment-breadcrumb])

Michaela Ziegler (Jul 09 2020 at 07:39):

@Eric Haas Do you still have this error message, or how did you solve it/what is the reason?

Eric Haas (Jul 09 2020 at 22:52):

I will need to run again in isolation to see. will ping you after.

Eric Haas (Jul 12 2020 at 22:39):

Yes I am still getting bad links for contained references even though there is no corresponding error in the example resource itself.

Here is the repro: https://github.com/Healthedata1/IG-Template4/tree/color-highlighting

the qa file is here: https://github.com/Healthedata1/IG-Template4/blob/color-highlighting/docs/qa.txt

Eric Haas (Jul 12 2020 at 22:39):

I did not recheck the bundle example.

Grahame Grieve (Jul 13 2020 at 23:31):

so when I try to clone that repo to a new folder:

git.exe clone --progress -v "https://github.com/Healthedata1/IG-Template4" "C:\work\org.hl7.fhir.igs\IG-Template4"
Cloning into 'C:\work\org.hl7.fhir.igs\IG-Template4'...
POST git-upload-pack (152 bytes)
POST git-upload-pack (490 bytes)
remote: Enumerating objects: 5484, done.
remote: Counting objects: 100% (5484/5484), done.
remote: Compressing objects: 100% (2107/2107), done.
remote: Total 28998 (delta 4522), reused 4123 (delta 3312), pack-reused 23514
Receiving objects: 100% (28998/28998), 85.58 MiB | 3.09 MiB/s, done.
Resolving deltas: 100% (25047/25047), done.
error: invalid path 'my notes/201810:29-build notes'
fatal: unable to checkout working tree
warning: Clone succeeded, but checkout failed.
You can inspect what was checked out with 'git status'
and retry with 'git restore --source=HEAD :/'
git did not exit cleanly (exit code 128) (33453 ms @ 14/07/2020 9:31:17 AM)

Eric Haas (Jul 14 2020 at 02:19):

OK I cleaned up the folder and should work for you now. Note that the error is reproduced in the 'color-highlighting' branch

Grahame Grieve (Jul 16 2020 at 06:50):

I still get error: invalid path 'my notes/201810:29-build notes'

Grahame Grieve (Jul 16 2020 at 06:51):

you can't commit a file with : in the name

Eric Haas (Jul 16 2020 at 20:31):

OK I removed all the my_notes folders from all the branches in the repro. so I hope is not a problem anymore

Grahame Grieve (Jul 17 2020 at 03:38):

ok fixed next release

Eric Haas (Jul 21 2020 at 21:07):

yes that fixed the contained references but still getting a bad link error to a bundle entry for a search bundle examples for provenance target referencing the other resource in the Bundle.

Bundle-example1.html#/html/body/div/div/div/div/div/div/blockquote/p/a at Line 196, column 517  error   The link 'Procedure/1153' for "Procedure/1153" cannot be resolved

It can be reproduced in the the same repro as above but in the "add-tabs branch": https://github.com/Healthedata1/IG-Template4/tree/add-tabs

for this example: https://github.com/Healthedata1/IG-Template4/blob/add-tabs/input/examples/bundle-example1.json