Unable to generate a file with the vital signs for diabetes patients

[BioinfoGuy10]

          ./run_synthea -s 1234 -p 10 -m metabolic*:wellness*  --generate.log_patients.detail = detailed --exporter.csv.export = true --exporter.baseDirectory="./output_tx_diabetes/"

This is the command I am using but I am not able to get the details in observations.csv.
Instead this is the information I get in the file

DATE	PATIENT	ENCOUNTER	CATEGORY	CODE	DESCRIPTION	VALUE	UNITS	TYPE
2014-03-08T16:35:19Z	106a3773-6a9d-988b-0aad-eb4a535bef4b	QALY	QALY	24	a	numeric
2015-03-08T16:35:19Z	106a3773-6a9d-988b-0aad-eb4a535bef4b	QALY	QALY	25	a	numeric
2016-03-08T16:35:19Z	106a3773-6a9d-988b-0aad-eb4a535bef4b	QALY	QALY	26	a	numeric
2017-03-08T16:35:19Z	106a3773-6a9d-988b-0aad-eb4a535bef4b	QALY	QALY	27	a	numeric
2018-03-08T16:35:19Z	106a3773-6a9d-988b-0aad-eb4a535bef4b	QALY	QALY	28	a	numeric
2019-03-08T16:35:19Z	106a3773-6a9d-988b-0aad-eb4a535bef4b	QALY	QALY	29	a	numeric
2020-03-08T16:35:19Z	106a3773-6a9d-988b-0aad-eb4a535bef4b	QALY	QALY	30	a	numeric
2021-03-08T16:35:19Z	106a3773-6a9d-988b-0aad-eb4a535bef4b	QALY	QALY	31	a	numeric
2022-03-08T16:35:19Z	106a3773-6a9d-988b-0aad-eb4a535bef4b	QALY	QALY	32	a	numeric
2023-03-08T16:35:19Z	106a3773-6a9d-988b-0aad-eb4a535bef4b	QALY	QALY	33	a	numeric
2024-03-08T16:35:19Z	106a3773-6a9d-988b-0aad-eb4a535bef4b	QALY	QALY	34	a	numeric
2014-03-08T16:35:19Z	106a3773-6a9d-988b-0aad-eb4a535bef4b	DALY	DALY	0	a	numeric
2015-03-08T16:35:19Z	106a3773-6a9d-988b-0aad-eb4a535bef4b	DALY	DALY	0	a	numeric
2016-03-08T16:35:19Z	106a3773-6a9d-988b-0aad-eb4a535bef4b	DALY	DALY	0	a	numeric
2017-03-08T16:35:19Z	106a3773-6a9d-988b-0aad-eb4a535bef4b	DALY	DALY	0	a	numeric

Originally posted by @BioinfoGuy10 in #310 (comment)

[jawalonoski]

1. We don't troubleshoot issues that use the -m feature. https://github.com/synthetichealth/synthea/wiki/The--M-Feature
2. However, the formatting of your table is incorrect. Which led me to double-check the output. It should look something like this....

DATE	PATIENT	ENCOUNTER	CATEGORY	CODE	DESCRIPTION	VALUE	UNITS	TYPE
2014-03-08T16:35:19Z	106a3773-6a9d-988b-0aad-eb4a535bef4b			QALY	QALY	24	a	numeric

3. If you only got QALY and DALY observations, then the modules you specified with -m didn't load. See 1 above. You probably formatted the command line incorrectly for the shell you're using. Here is what works for me on Mac OS X, but it will depend on your OS and shell.

./run_synthea -p 10 --exporter.csv.export=true -m "metabolic*:wellness*"

Look for output that says something like:

Correct

Modules: Metabolic Syndrome Disease Progression Module
       & Metabolic Syndrome Standards of Care Module
       & Wellness Encounters Module
       > [3 loaded]

Incorrect

Modules: 
       > [0 loaded]

[BioinfoGuy10]

It says Modules:>[0 loaded]. What would potentially change in the command that you provided in powershell?

[BioinfoGuy10]

I got it to work but I am still not able to get this data in the observations.csv

[jawalonoski]

It says Modules:>[0 loaded]. What would potentially change in the command that you provided in powershell?

Different operating systems and shells parse the command line options differently, including wildcards (*) with and without quotes (") and file separators (in my example, :).

I don't use powershell.

[BioinfoGuy10]

@jawalonoski , could you help me get the vital signs in the observations.csv?.
Refer to the above comment

[jawalonoski]

They should already be there, unless you've altered your setup.

I ran the following command on Mac OS X:

./run_synthea -s 1234 -p 10 -m "metabolic*:wellness*"  --generate.log_patients.detail=detailed --exporter.csv.export=true --exporter.baseDirectory="./output_tx_diabetes/"

I opened ./output_tx_diabetes/csv/observations.csv with Microsoft Excel, and created a pivot table....

Filtered to the Data in your screenshot

---

All Lab Data

Vital Signs

Survey Data

No Category