Stream: IG creation
Topic: stack dump with -publish parameter
Bob Milius (Nov 18 2020 at 16:17):
Not sure if this is a sushi issue or publisher issue. Since publisher is giving me stack dump instead of an error msg, I figured I would post it here.
versions:
SUSHI v1.0.1 (implements FHIR Shorthand specification v1.0.0)
FHIR IG Publisher Version 1.1.42 (Git# 6036cc0fc6a7). Built 2020-11-13T20:16:00.666Z (4 days old)
I'm doing a sushi --init and defaulting everything. It creates a single project with a patient resource. Then I updated publisher, and run it. Every builds fine. No publisher errors, but 2 warnings and 11 broken links. Then I run publisher again and add the -publish parameter and I get a stack dump at the very end during the onGenerate bit. No output is produced except for a qa.json file. Here's an example session, commented and edited for brevity:
$ sushi --init
# entered defaults
$ cd ExampleIG/
$ sushi .
# no errors
$ ./_updatePublisher.sh
# entered defaults, updated scripts = y
$ java -jar input-cache/publisher.jar -ig ig.ini
FHIR IG Publisher Version 1.1.42 (Git# 6036cc0fc6a7). Built 2020-11-13T20:16:00.666Z (4 days old)
File log: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/fhir-ig-publisher-tmp.log
Detected Java version: 1.8.0_172 from /Library/Java/JavaVirtualMachines/jdk1.8.0_172.jdk/Contents/Home/jre on x86_64 (64bit). 3641MB available
Parameters: -ig ig.ini
...etc...
onGenerate:
Generating Summary Outputs (00:25.0230)
Sending Usage Stats to Server (00:26.0351)
## Memory (MB): Use = 700, Free = 482, Total = 1183, Max =3641
Reclaiming memory...
## Memory (MB): Use = 181, Free = 1018, Total = 1200, Max =3641
Jekyll: Source: /Users/bmilius/Documents/src/fsh/ExampleIG/temp/pages (00:27.0510)
Jekyll: Generating... (00:27.0510)
Jekyll: done in 0.295 seconds. (00:27.0805)
Installing fhir.example#dev to the package cache
Fetching:
Installing: done.
Checking Output HTML (00:28.0037)
found 496 files (00:28.0042)
.........................................
.........................................
... 496 html files, 0 pages invalid xhtml (0%) (00:28.0660)
... 8350 links, 11 broken links (0%) (00:28.0661)
Build final .zip (00:28.0661)
Final .zip built (00:28.0890)
Finished. Times: loading: 00:00.0217, generate: 00:17.0217, narrative generation: 00:00.0204, realm-rules: 00:00.0000, previous-version: 00:00.0000, jekyll: 00:01.0178, validation: 00:00.0362 (#2), template: 00:08.0660 (#3) (00:29.0242)
context [anonymous] 2:13 attribute path isn't defined
context [anonymous] 2:13 attribute path isn't defined
Validation output in /Users/bmilius/Documents/src/fsh/ExampleIG/output/qa.html
Errors: 0, Warnings: 2, Info: 0, Broken Links = 11 (00:29.0354)
Done. This IG has been built using the 'normal' process for local use. If building to host on an an external website, use the process documented [yet to be documented]]) (00:29.0355)
$ java -jar input-cache/publisher.jar -ig ig.ini -publish
FHIR IG Publisher Version 1.1.42 (Git# 6036cc0fc6a7). Built 2020-11-13T20:16:00.666Z (4 days old)
File log: /var/folders/tz/3rrsdjx94d5fj_z_trln782xzm_j0b/T/fhir-ig-publisher-tmp.log
Detected Java version: 1.8.0_172 from /Library/Java/JavaVirtualMachines/jdk1.8.0_172.jdk/Contents/Home/jre on x86_64 (64bit). 3641MB available
Parameters: -ig ig.ini -publish
...etc...
onGenerate:Generating Summary Outputs (00:21.0419)
Sending Usage Stats to Server (00:22.0989)
## Memory (MB): Use = 543, Free = 421, Total = 965, Max =3641
Reclaiming memory...
## Memory (MB): Use = 181, Free = 979, Total = 1160, Max =3641
Publishing Content Failed: null (00:23.0261)
(00:23.0261)
Use -? to get command line help (00:23.0261)
(00:23.0261)
Stack Dump (for debugging): (00:23.0261)
java.lang.NullPointerException
at java.lang.String.replace(String.java:2240)
at org.hl7.fhir.igtools.publisher.Publisher.fixSearchForm(Publisher.java:5016)
at org.hl7.fhir.igtools.publisher.Publisher.generate(Publisher.java:4932)
at org.hl7.fhir.igtools.publisher.Publisher.createIg(Publisher.java:884)
at org.hl7.fhir.igtools.publisher.Publisher.execute(Publisher.java:728)
at org.hl7.fhir.igtools.publisher.Publisher.main(Publisher.java:8373)
$
Grahame Grieve (Nov 18 2020 at 16:22):
why are you adding a -publish parameter?
Bob Milius (Nov 18 2020 at 16:25):
I'm creating IGs to be published on a non-HL7 server, which will create redirect php scripts, and history. I'm following a procedure you described in another thread. It worked for me for another IG, but that was last June with earlier versions of publisher and sushi. I was getting this error now using the newer sushi and publisher and am trying to figure out whether it was something wrong with my IG or if it's a new sushi/publisher issue, so I tried to create a minimal IG.
Bob Milius (Nov 18 2020 at 16:28):
using the workflow described here:
https://chat.fhir.org/#narrow/stream/179252-IG-creation/topic/IG.20releases/near/196824352
Grahame Grieve (Nov 18 2020 at 16:40):
you have to provide an additional parameter with -publish, the url you are going to publish at
Bob Milius (Nov 18 2020 at 16:51):
@Grahame Grieve Thanks! That was it.
Last updated: Apr 12 2022 at 19:14 UTC
