id,node_id,number,title,user,state,locked,assignee,milestone,comments,created_at,updated_at,closed_at,author_association,pull_request,body,repo,type,active_lock_reason,performed_via_github_app,reactions,draft,state_reason
771608692,MDU6SXNzdWU3NzE2MDg2OTI=,14,UNIQUE constraint failed: workouts.id,1234956,open,0,,,5,2020-12-20T15:11:20Z,2023-07-10T14:46:52Z,,NONE,,"I'm getting an error on my initial attempt to import data:

```console
$ healthkit-to-sqlite 20201119\ healthkit\ export.zip healthkit.db
Importing from HealthKit  [###################################-]   98%  00:00:01
Traceback (most recent call last):
  File ""venv/bin/healthkit-to-sqlite"", line 8, in <module>
    sys.exit(cli())
  File ""venv/lib/python3.9/site-packages/click/core.py"", line 829, in __call__
    return self.main(*args, **kwargs)
  File ""venv/lib/python3.9/site-packages/click/core.py"", line 782, in main
    rv = self.invoke(ctx)
  File ""venv/lib/python3.9/site-packages/click/core.py"", line 1066, in invoke
    return ctx.invoke(self.callback, **ctx.params)
  File ""venv/lib/python3.9/site-packages/click/core.py"", line 610, in invoke
    return callback(*args, **kwargs)
  File ""venv/lib/python3.9/site-packages/healthkit_to_sqlite/cli.py"", line 57, in cli
    convert_xml_to_sqlite(fp, db, progress_callback=bar.update, zipfile=zf)
  File ""venv/lib/python3.9/site-packages/healthkit_to_sqlite/utils.py"", line 34, in convert_xml_to_sqlite
    workout_to_db(el, db, zipfile)
  File ""venv/lib/python3.9/site-packages/healthkit_to_sqlite/utils.py"", line 57, in workout_to_db
    pk = db[""workouts""].insert(record, alter=True, hash_id=""id"").last_pk
  File ""venv/lib/python3.9/site-packages/sqlite_utils/db.py"", line 1660, in insert
    return self.insert_all(
  File ""venv/lib/python3.9/site-packages/sqlite_utils/db.py"", line 1778, in insert_all
    self.insert_chunk(
  File ""venv/lib/python3.9/site-packages/sqlite_utils/db.py"", line 1588, in insert_chunk
    result = self.db.execute(query, params)
  File ""venv/lib/python3.9/site-packages/sqlite_utils/db.py"", line 213, in execute
    return self.conn.execute(sql, parameters)
sqlite3.IntegrityError: UNIQUE constraint failed: workouts.id
```",197882382,issue,,,"{""url"": ""https://api.github.com/repos/dogsheep/healthkit-to-sqlite/issues/14/reactions"", ""total_count"": 0, ""+1"": 0, ""-1"": 0, ""laugh"": 0, ""hooray"": 0, ""confused"": 0, ""heart"": 0, ""rocket"": 0, ""eyes"": 0}",,
1515883470,I_kwDOC8tyDs5aWovO,24,DOC: xml.etree.ElementTree.ParseError due to healthkit version 12 ,6231413,open,0,,,2,2023-01-01T23:00:38Z,2023-03-30T10:17:31Z,,NONE,,"Hi @simonw 

I hope you find this issue ok, the idea is provide some documentation to other users like me about how to solve this problem and save some time.

Following the instructions from the `README.md` I've faced this error:

```bash
(venv) mgreco@pop-os apple-health master* (23:44|0s)
$ healthkit-to-sqlite apple_health_export/export.xml healthkit.db --xml
Importing from HealthKit  [------------------------------------]    0%
Traceback (most recent call last):
  File ""/home/mgreco/github/mmngreco/apple-health/venv/bin/healthkit-to-sqlite"", line 33, in <module>
    sys.exit(load_entry_point('healthkit-to-sqlite', 'console_scripts', 'healthkit-to-sqlite')())
  File ""/home/mgreco/github/mmngreco/apple-health/venv/lib/python3.10/site-packages/click/core.py"", line 1130, in __call__
    return self.main(*args, **kwargs)
  File ""/home/mgreco/github/mmngreco/apple-health/venv/lib/python3.10/site-packages/click/core.py"", line 1055, in main
    rv = self.invoke(ctx)
  File ""/home/mgreco/github/mmngreco/apple-health/venv/lib/python3.10/site-packages/click/core.py"", line 1404, in invoke
    return ctx.invoke(self.callback, **ctx.params)
  File ""/home/mgreco/github/mmngreco/apple-health/venv/lib/python3.10/site-packages/click/core.py"", line 760, in invoke
    return __callback(*args, **kwargs)
  File ""/home/mgreco/github/mmngreco/apple-health/.deps/healthkit-to-sqlite/healthkit_to_sqlite/cli.py"", line 57, in cli
    convert_xml_to_sqlite(fp, db, progress_callback=bar.update, zipfile=zf)
  File ""/home/mgreco/github/mmngreco/apple-health/.deps/healthkit-to-sqlite/healthkit_to_sqlite/utils.py"", line 25, in convert_xml_to_sqlite
    for tag, el in find_all_tags(
  File ""/home/mgreco/github/mmngreco/apple-health/.deps/healthkit-to-sqlite/healthkit_to_sqlite/utils.py"", line 12, in find_all_tags
    for event, el in parser.read_events():
  File ""/home/mgreco/github/mmngreco/apple-health/venv/lib/python3.10/xml/etree/ElementTree.py"", line 1324, in read_events
    raise event
  File ""/home/mgreco/github/mmngreco/apple-health/venv/lib/python3.10/xml/etree/ElementTree.py"", line 1296, in feed
    self._parser.feed(data)
xml.etree.ElementTree.ParseError: syntax error: line 156, column 0
```

So, after debugging and searching on internet I found this useful link: https://discussions.apple.com/thread/254202523 (etresoft, the real hero). Which basically says that the xml given by the health app (healthkit version 12) has some bugs but  fortunately, they can be solved with a couple of commads:

1. Uncompress the zip and move the new folder where `export.xml` is.
1. Create a `patch.txt` with the following content

    ```diff
    --- export.xml	2022-09-18 15:17:09.000000000 -0400
    +++ export-fixed.xml	2022-09-18 16:37:08.000000000 -0400
    @@ -15,6 +15,7 @@
       HKCharacteristicTypeIdentifierBiologicalSex       CDATA #REQUIRED
       HKCharacteristicTypeIdentifierBloodType           CDATA #REQUIRED
       HKCharacteristicTypeIdentifierFitzpatrickSkinType CDATA #REQUIRED
    +  HKCharacteristicTypeIdentifierCardioFitnessMedicationsUse CDATA #IMPLIED
     >
     <!ELEMENT Record ((MetadataEntry|HeartRateVariabilityMetadataList)*)>
     <!ATTLIST Record
    @@ -39,7 +40,7 @@
       startDate     CDATA #REQUIRED
       endDate       CDATA #REQUIRED
     >
    -<!ELEMENT Workout ((MetadataEntry|WorkoutEvent|WorkoutRoute)*)>
    +<!ELEMENT Workout ((MetadataEntry|WorkoutEvent|WorkoutRoute|WorkoutStatistics)*)>
     <!ATTLIST Workout
       workoutActivityType   CDATA #REQUIRED
       duration              CDATA #IMPLIED
    @@ -63,7 +64,7 @@
       duration             CDATA #IMPLIED
       durationUnit         CDATA #IMPLIED
     >
    -<!ELEMENT WorkoutEvent EMPTY>
    +<!ELEMENT WorkoutEvent (MetadataEntry?)>
     <!ATTLIST WorkoutEvent
       type                 CDATA #REQUIRED
       date                 CDATA #REQUIRED
    @@ -79,6 +80,7 @@
       minimum              CDATA #IMPLIED
       maximum              CDATA #IMPLIED
       sum                  CDATA #IMPLIED
    +  unit                 CDATA #IMPLIED
     >
     <!ELEMENT WorkoutRoute ((MetadataEntry|FileReference)*)>
     <!ATTLIST WorkoutRoute
    @@ -153,6 +155,7 @@
       dateIssued       CDATA #REQUIRED
       expirationDate   CDATA #REQUIRED
       brand            CDATA #IMPLIED
    +>
     <!ELEMENT RightEye EMPTY>
     <!ATTLIST RightEye
       sphere           CDATA #IMPLIED
    @@ -203,13 +206,6 @@
       diameter         CDATA #IMPLIED
       diameterUnit     CDATA #IMPLIED
     >
    -  device           CDATA #IMPLIED
    -<!ELEMENT MetadataEntry EMPTY>
    -<!ATTLIST MetadataEntry
    -  key              CDATA #IMPLIED
    -  value            CDATA #IMPLIED
    ->
    ->
     ]>
     <HealthData>
      <ExportDate/>
    ```
1. Apply the path with the command: `patch < patch.txt`
1. Fix endDates with the command `sed 's/startDate/endDate/2' export.xml > export-fixed.xml`
1. Try again `healthkit-to-sqlite export-fixed.xml healthkit.db --xml`",197882382,issue,,,"{""url"": ""https://api.github.com/repos/dogsheep/healthkit-to-sqlite/issues/24/reactions"", ""total_count"": 0, ""+1"": 0, ""-1"": 0, ""laugh"": 0, ""hooray"": 0, ""confused"": 0, ""heart"": 0, ""rocket"": 0, ""eyes"": 0}",,
1515717718,PR_kwDOC8tyDs5Gc-VH,23,Include workout statistics,2129,open,0,,,0,2023-01-01T17:29:57Z,2023-01-01T17:29:57Z,,FIRST_TIME_CONTRIBUTOR,dogsheep/healthkit-to-sqlite/pulls/23,"Not sure when this changed (iOS 16 maybe?), but the `WorkoutStatistics` now has a whole bunch of information about workouts, e.g. for runs it contains the distance (as a `<WorkoutStatistics type=""HKQuantityTypeIdentifierDistanceWalkingRunning ...>` element).

Adding it as another column at leat allows me to pull these out (using SQLite's JSON support).
I'm running with this patch on my own data now.",197882382,pull,,,"{""url"": ""https://api.github.com/repos/dogsheep/healthkit-to-sqlite/issues/23/reactions"", ""total_count"": 0, ""+1"": 0, ""-1"": 0, ""laugh"": 0, ""hooray"": 0, ""confused"": 0, ""heart"": 0, ""rocket"": 0, ""eyes"": 0}",0,
727848625,MDU6SXNzdWU3Mjc4NDg2MjU=,12,"Some workout columns should be float, not text",9599,open,0,,,4,2020-10-23T02:47:02Z,2022-06-23T04:35:02Z,,MEMBER,,"Columns `duration`, `totalDistance` and `totalEnergyBurned` should be converted to float.

https://github.com/dogsheep/healthkit-to-sqlite/blob/71e36e1cf034b96de2a8e6652265d782d3fdf63b/healthkit_to_sqlite/utils.py#L50-L57",197882382,issue,,,"{""url"": ""https://api.github.com/repos/dogsheep/healthkit-to-sqlite/issues/12/reactions"", ""total_count"": 0, ""+1"": 0, ""-1"": 0, ""laugh"": 0, ""hooray"": 0, ""confused"": 0, ""heart"": 0, ""rocket"": 0, ""eyes"": 0}",,
743071410,MDExOlB1bGxSZXF1ZXN0NTIxMDU0NjEy,13,SQLite does not have case sensitive columns,1689944,open,0,,,1,2020-11-14T20:12:32Z,2021-08-24T13:28:26Z,,FIRST_TIME_CONTRIBUTOR,dogsheep/healthkit-to-sqlite/pulls/13,"This solves a weird issue when there is record with metadata key
that is only different in letter cases.

See the test for details.",197882382,pull,,,"{""url"": ""https://api.github.com/repos/dogsheep/healthkit-to-sqlite/issues/13/reactions"", ""total_count"": 0, ""+1"": 0, ""-1"": 0, ""laugh"": 0, ""hooray"": 0, ""confused"": 0, ""heart"": 0, ""rocket"": 0, ""eyes"": 0}",0,
978086284,MDExOlB1bGxSZXF1ZXN0NzE4NzM0MTkx,22,Make sure that case-insensitive column names are unique,32016596,open,0,,,1,2021-08-24T13:13:38Z,2021-08-24T13:26:20Z,,FIRST_TIME_CONTRIBUTOR,dogsheep/healthkit-to-sqlite/pulls/22,"This closes #21.

When there are metadata entries with the same case insensitive string, then there is an error when trying to create a new column for that metadata entry in the database table, because a column with that case insensitive name already exists.

```xml
 <Record type=""HKQuantityTypeIdentifierDietaryCholesterol"" sourceName=""MyFitnessPal"" sourceVersion=""35120"" unit=""mg"" creationDate=""2021-07-04 20:55:27 +0200"" startDate=""2021-07-04 20:55:00 +0200"" endDate=""2021-07-04 20:55:00 +0200"" value=""124"">
  <MetadataEntry key=""meal"" value=""Dinner""/>
  <MetadataEntry key=""Meal"" value=""Dinner""/>
 </Record>
```

The code added in this PR checks if a key already exists in a record and if so adds a number at its end. The resulting column names look like the example below then. Interestingly, the column names viewed with Datasette are not case insensitive.

```text
startDate, endDate, value, unit, sourceName, sourceVersion, creationDate, metadata_meal, metadata_Meal_2, metadata_Mahlzeit
```
",197882382,pull,,,"{""url"": ""https://api.github.com/repos/dogsheep/healthkit-to-sqlite/issues/22/reactions"", ""total_count"": 0, ""+1"": 0, ""-1"": 0, ""laugh"": 0, ""hooray"": 0, ""confused"": 0, ""heart"": 0, ""rocket"": 0, ""eyes"": 0}",0,
977128935,MDU6SXNzdWU5NzcxMjg5MzU=,21,Duplicate Column,32016596,open,0,,,1,2021-08-23T15:00:44Z,2021-08-23T17:00:59Z,,NONE,,"Hey, thank you for this repo!

When I try to convert my export, I get a multiple column error. Here is the stack trace:

```sh
(.venv) (base) computer:bodyweight_app user$ healthkit-to-sqlite ./data/Health_export.zip ./data/healthkit.db
Importing from HealthKit  [###############################-----]   87%  00:00:22
Traceback (most recent call last):
  File ""/MyProject/.venv/bin/healthkit-to-sqlite"", line 10, in <module>
    sys.exit(cli())
  File ""/MyProject/.venv/lib/python3.7/site-packages/click/core.py"", line 829, in __call__
    return self.main(*args, **kwargs)
  File ""/MyProject/.venv/lib/python3.7/site-packages/click/core.py"", line 782, in main
    rv = self.invoke(ctx)
  File ""/MyProject/.venv/lib/python3.7/site-packages/click/core.py"", line 1066, in invoke
    return ctx.invoke(self.callback, **ctx.params)
  File ""/MyProject/.venv/lib/python3.7/site-packages/click/core.py"", line 610, in invoke
    return callback(*args, **kwargs)
  File ""/MyProject/.venv/lib/python3.7/site-packages/healthkit_to_sqlite/cli.py"", line 57, in cli
    convert_xml_to_sqlite(fp, db, progress_callback=bar.update, zipfile=zf)
  File ""/MyProject/.venv/lib/python3.7/site-packages/healthkit_to_sqlite/utils.py"", line 41, in convert_xml_to_sqlite
    write_records(records, db)
  File ""/MyProject/.venv/lib/python3.7/site-packages/healthkit_to_sqlite/utils.py"", line 146, in write_records
    batch_size=50,
  File ""/MyProject/.venv/lib/python3.7/site-packages/sqlite_utils/db.py"", line 2579, in insert_all
    extracts=extracts,
  File ""/MyProject/.venv/lib/python3.7/site-packages/sqlite_utils/db.py"", line 1246, in create
    extracts=extracts,
  File ""/MyProject/.venv/lib/python3.7/site-packages/sqlite_utils/db.py"", line 767, in create_table
    self.execute(sql)
  File ""/MyProject/.venv/lib/python3.7/site-packages/sqlite_utils/db.py"", line 421, in execute
    return self.conn.execute(sql)
sqlite3.OperationalError: duplicate column name: metadata_Meal
```",197882382,issue,,,"{""url"": ""https://api.github.com/repos/dogsheep/healthkit-to-sqlite/issues/21/reactions"", ""total_count"": 5, ""+1"": 5, ""-1"": 0, ""laugh"": 0, ""hooray"": 0, ""confused"": 0, ""heart"": 0, ""rocket"": 0, ""eyes"": 0}",,
975166271,MDU6SXNzdWU5NzUxNjYyNzE=,20,Add index on workout_points.date,9599,open,0,,,2,2021-08-20T01:08:04Z,2021-08-20T01:12:48Z,,MEMBER,,"Sorting that by date makes sense for seeing most recent points, and my DB has 2.5m points in so it's an expensive sort!",197882382,issue,,,"{""url"": ""https://api.github.com/repos/dogsheep/healthkit-to-sqlite/issues/20/reactions"", ""total_count"": 0, ""+1"": 0, ""-1"": 0, ""laugh"": 0, ""hooray"": 0, ""confused"": 0, ""heart"": 0, ""rocket"": 0, ""eyes"": 0}",,
836064851,MDExOlB1bGxSZXF1ZXN0NTk2NjI3Nzgw,18,Add datetime parsing,1234956,open,0,,,0,2021-03-19T14:34:22Z,2021-03-19T14:34:22Z,,FIRST_TIME_CONTRIBUTOR,dogsheep/healthkit-to-sqlite/pulls/18,"Parses the datetime columns so they are subsequently properly recognized as
datetime.

Fixes https://github.com/dogsheep/healthkit-to-sqlite/issues/17
",197882382,pull,,,"{""url"": ""https://api.github.com/repos/dogsheep/healthkit-to-sqlite/issues/18/reactions"", ""total_count"": 0, ""+1"": 0, ""-1"": 0, ""laugh"": 0, ""hooray"": 0, ""confused"": 0, ""heart"": 0, ""rocket"": 0, ""eyes"": 0}",0,
836063389,MDU6SXNzdWU4MzYwNjMzODk=,17,Datetime columns are not properly formatted to be recognizes as datetime,1234956,open,0,,,0,2021-03-19T14:33:04Z,2021-03-19T14:33:04Z,,NONE,,"

Currently, the datetimes are formatted in a way that is not recognized by datasette-vega for plotting with a `Date/time` type for the axis. 

For example, if you have datasette running locally with `datasette-vega` installed and have a database that includes resting heart rate:

```
http://localhost:8001/healthkit/rRestingHeartRate#g.mark=line&g.x_column=startDate&g.x_type=temporal&g.y_column=value&g.y_type=quantitative
```

The plot is blank unless you choose `Label` as the type for the date data.

The `startDate` (and `creationDate` and `endDate`) columns appear like: `2019-11-14 18:22:18 -0700`

If instead the format for this column is changed slightly: `2019-11-14T18:22:18-07:00` they are recognized as proper dates and the charting works as expected.

I have a PR that addresses this issue, will submit shortly.",197882382,issue,,,"{""url"": ""https://api.github.com/repos/dogsheep/healthkit-to-sqlite/issues/17/reactions"", ""total_count"": 0, ""+1"": 0, ""-1"": 0, ""laugh"": 0, ""hooray"": 0, ""confused"": 0, ""heart"": 0, ""rocket"": 0, ""eyes"": 0}",,
830901133,MDExOlB1bGxSZXF1ZXN0NTkyMzY0MjU1,16,"Add a fallback ID, print if no ID found",1234956,open,0,,,0,2021-03-13T13:38:29Z,2021-03-13T14:44:04Z,,FIRST_TIME_CONTRIBUTOR,dogsheep/healthkit-to-sqlite/pulls/16,"Fixes https://github.com/dogsheep/healthkit-to-sqlite/issues/14
",197882382,pull,,,"{""url"": ""https://api.github.com/repos/dogsheep/healthkit-to-sqlite/issues/16/reactions"", ""total_count"": 0, ""+1"": 0, ""-1"": 0, ""laugh"": 0, ""hooray"": 0, ""confused"": 0, ""heart"": 0, ""rocket"": 0, ""eyes"": 0}",0,
793907673,MDExOlB1bGxSZXF1ZXN0NTYxNTEyNTAz,15,added try / except to write_records ,9857779,open,0,,,0,2021-01-26T03:56:21Z,2021-01-26T03:56:21Z,,FIRST_TIME_CONTRIBUTOR,dogsheep/healthkit-to-sqlite/pulls/15,"to keep the data write from failing if it came across an error during processing. In particular when trying to convert my HealthKit zip file (and that of my wife's) it would consistently error out with the following:

```
db.py 1709 insert_chunk
result = self.db.execute(query, params)

db.py 226 execute
return self.conn.execute(sql, parameters)

sqlite3.OperationalError:
too many SQL variables

---------------------------------------------------------------------------------------------------------------------------------------------------------------------
db.py 1709 insert_chunk
result = self.db.execute(query, params)

db.py 226 execute
return self.conn.execute(sql, parameters)

sqlite3.OperationalError:
too many SQL variables

---------------------------------------------------------------------------------------------------------------------------------------------------------------------
db.py 1709 insert_chunk
result = self.db.execute(query, params)

db.py 226 execute
return self.conn.execute(sql, parameters)

sqlite3.OperationalError:
table rBodyMass has no column named metadata_HKWasUserEntered

---------------------------------------------------------------------------------------------------------------------------------------------------------------------
healthkit-to-sqlite 8 <module>
sys.exit(cli())

core.py 829 __call__
return self.main(*args, **kwargs)

core.py 782 main
rv = self.invoke(ctx)

core.py 1066 invoke
return ctx.invoke(self.callback, **ctx.params)

core.py 610 invoke
return callback(*args, **kwargs)

cli.py 57 cli
convert_xml_to_sqlite(fp, db, progress_callback=bar.update, zipfile=zf)

utils.py 42 convert_xml_to_sqlite
write_records(records, db)

utils.py 143 write_records
db[table].insert_all(

db.py 1899 insert_all
self.insert_chunk(

db.py 1720 insert_chunk
self.insert_chunk(

db.py 1720 insert_chunk
self.insert_chunk(

db.py 1714 insert_chunk
result = self.db.execute(query, params)

db.py 226 execute
return self.conn.execute(sql, parameters)

sqlite3.OperationalError:
table rBodyMass has no column named metadata_HKWasUserEntered
```

Adding the try / except in the `write_records` seems to fix that issue. ",197882382,pull,,,"{""url"": ""https://api.github.com/repos/dogsheep/healthkit-to-sqlite/issues/15/reactions"", ""total_count"": 0, ""+1"": 0, ""-1"": 0, ""laugh"": 0, ""hooray"": 0, ""confused"": 0, ""heart"": 0, ""rocket"": 0, ""eyes"": 0}",0,