docs: fix more relative links

sgratzl · sgratzl · commit 6b671c08e0b5 · 2021-06-30T15:25:58.000+02:00
diff --git a/docs/api/afhsb.md b/docs/api/afhsb.md
@@ -31,7 +31,7 @@ See [this documentation](README.md) for details on specifying epiweeks, dates, a
 | --- | --- | --- |
 | `auth` | password | string |
 | `epiweeks` | epiweeks | `list` of epiweeks |
-| `locations` | locations | `list` of [region](../../labels/regions.txt), [state](../../labels/states.txt), or 3-letter country code labels |
+| `locations` | locations | `list` of [region](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/regions.txt), [state](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/states.txt), or 3-letter country code labels |
 | `flu_types` | flu types | `list` of disjoint (`flu1`, `flu2-flu1`, `flu3-flu2`, `ili-flu3`) or subset (`flu2`, `flu3`, `ili`) flu type labels |
 
 ## Response
diff --git a/docs/api/cdc.md b/docs/api/cdc.md
@@ -31,7 +31,7 @@ See [this documentation](README.md) for details on specifying epiweeks, dates, a
 | --- | --- | --- |
 | `auth` | password | string |
 | `epiweeks` | epiweeks | `list` of epiweeks |
-| `locations` | locations | `list` of [region](../../labels/regions.txt)/[state](../../labels/states.txt) labels <!-- TODO: check --> |
+| `locations` | locations | `list` of [region](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/regions.txt)/[state](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/states.txt) labels <!-- TODO: check --> |
 
 ## Response
 
diff --git a/docs/api/flusurv.md b/docs/api/flusurv.md
@@ -37,7 +37,7 @@ See [this documentation](README.md) for details on specifying epiweeks, dates, a
 | Parameter | Description | Type |
 | --- | --- | --- |
 | `epiweeks` | epiweeks | `list` of epiweeks |
-| `locations` | locations | `list` of [location](../../labels/flusurv_locations.txt) labels |
+| `locations` | locations | `list` of [location](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/flusurv_locations.txt) labels |
 
 ### Optional
 
diff --git a/docs/api/fluview.md b/docs/api/fluview.md
@@ -18,7 +18,7 @@ General topics not specific to any particular endpoint are discussed in the
 Influenza-like illness (ILI) from U.S. Outpatient Influenza-like Illness Surveillance Network (ILINet).
  - Data source: [United States Centers for Disease Control and Prevention](http://gis.cdc.gov/grasp/fluview/fluportaldashboard.html) (CDC)
  - Temporal Resolution: Weekly* from 1997w40
- - Spatial Resolution: National, [HHS regions](http://www.hhs.gov/iea/regional/), [Census divisions](http://www.census.gov/econ/census/help/geography/regions_and_divisions.html), most States and Territories, and some Cities (full list [here](../../src/acquisition/fluview/fluview_locations.py))
+ - Spatial Resolution: National, [HHS regions](http://www.hhs.gov/iea/regional/), [Census divisions](http://www.census.gov/econ/census/help/geography/regions_and_divisions.html), most States and Territories, and some Cities (full list [here](https://github.com/cmu-delphi/delphi-epidata/blob/main/src/acquisition/fluview/fluview_locations.py))
  - Open access
 
 \* Data is usually released on Friday
@@ -36,7 +36,7 @@ See [this documentation](README.md) for details on specifying epiweeks, dates, a
 | Parameter | Description | Type |
 | --- | --- | --- |
 | `epiweeks` | epiweeks | `list` of epiweeks |
-| `regions` | regions | `list` of [region](../../labels/regions.txt) labels |
+| `regions` | regions | `list` of [region](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/regions.txt) labels |
 
 ### Optional
 
diff --git a/docs/api/fluview_clinical.md b/docs/api/fluview_clinical.md
@@ -31,7 +31,7 @@ See [this documentation](README.md) for details on specifying epiweeks, dates, a
 | Parameter | Description | Type |
 | --- | --- | --- |
 | `epiweeks` | epiweeks | `list` of epiweeks |
-| `regions` | regions | `list` of [region](../../labels/regions.txt) labels |
+| `regions` | regions | `list` of [region](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/regions.txt) labels |
 
 ### Optional
 
diff --git a/docs/api/gft.md b/docs/api/gft.md
@@ -18,7 +18,7 @@ General topics not specific to any particular endpoint are discussed in the
 Estimate of influenza activity based on volume of certain search queries. Google has discontinued Flu Trends, and this is now a static endpoint.
  - Source: [Google](https://www.google.org/flutrends/)
  - Temporal Resolution: Weekly from 2003w40 until 2015w32
- - Spatial Resolution: National, [HHS regions](http://www.hhs.gov/iea/regional/) ([1+10](../../labels/regions.txt)); by state/territory ([50+1](../../labels/states.txt)); and by city ([97](../../labels/cities.txt))
+ - Spatial Resolution: National, [HHS regions](http://www.hhs.gov/iea/regional/) ([1+10](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/regions.txt)); by state/territory ([50+1](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/states.txt)); and by city ([97](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/cities.txt))
  - Open access
 
 # The API
@@ -34,7 +34,7 @@ See [this documentation](README.md) for details on specifying epiweeks, dates, a
 | Parameter | Description | Type |
 | --- | --- | --- |
 | `epiweeks` | epiweeks | `list` of epiweeks |
-| `locations` | locations | `list` of [region](../../labels/regions.txt)/[state](../../labels/states.txt)/[city](../../labels/cities.txt) labels |
+| `locations` | locations | `list` of [region](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/regions.txt)/[state](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/states.txt)/[city](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/cities.txt) labels |
 
 ## Response
 
diff --git a/docs/api/ght.md b/docs/api/ght.md
@@ -31,7 +31,7 @@ See [this documentation](README.md) for details on specifying epiweeks, dates, a
 | --- | --- | --- |
 | `auth` | password | string |
 | `epiweeks` | epiweeks | `list` of epiweeks |
-| `locations` | locations | `list` of [state](../../labels/states.txt) and/or `US` labels |
+| `locations` | locations | `list` of [state](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/states.txt) and/or `US` labels |
 | `query` | search query or topic ID (see https://www.freebase.com/) | string |
 
 ## Response
diff --git a/docs/api/nidss_dengue.md b/docs/api/nidss_dengue.md
@@ -18,7 +18,7 @@ General topics not specific to any particular endpoint are discussed in the
 Counts of confirmed dengue cases from Taiwan's NIDSS.
  - Data source: [Taiwan CDC](http://nidss.cdc.gov.tw/en/SingleDisease.aspx?dc=1&dt=4&disease=061&position=1)
  - Temporal Resolution: Weekly from 2003w01
- - Spatial Resolution: By [hexchotomy region](https://en.wikipedia.org/wiki/Regions_of_Taiwan#Hexchotomy) ([6+1](../../labels/nidss_regions.txt)) and by [city/county](https://en.wikipedia.org/wiki/List_of_administrative_divisions_of_Taiwan) ([22](../../labels/nidss_locations.txt))
+ - Spatial Resolution: By [hexchotomy region](https://en.wikipedia.org/wiki/Regions_of_Taiwan#Hexchotomy) ([6+1](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/nidss_regions.txt)) and by [city/county](https://en.wikipedia.org/wiki/List_of_administrative_divisions_of_Taiwan) ([22](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/nidss_locations.txt))
  - Open access
 
 # The API
@@ -34,7 +34,7 @@ See [this documentation](README.md) for details on specifying epiweeks, dates, a
 | Parameter | Description | Type |
 | --- | --- | --- |
 | `epiweeks` | epiweeks | `list` of epiweeks |
-| `locations` | locations | `list` of [region](../../labels/nidss_regions.txt) and/or [location](../../labels/nidss_locations.txt) labels |
+| `locations` | locations | `list` of [region](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/nidss_regions.txt) and/or [location](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/nidss_locations.txt) labels |
 
 ## Response
 
diff --git a/docs/api/nidss_flu.md b/docs/api/nidss_flu.md
@@ -18,7 +18,7 @@ General topics not specific to any particular endpoint are discussed in the
 Outpatient ILI from Taiwan's National Infectious Disease Statistics System (NIDSS).
  - Source: [Taiwan CDC](http://nidss.cdc.gov.tw/en/CDCWNH01.aspx?dc=wnh)
  - Temporal Resolution: Weekly* from 2008w14
- - Spatial Resolution: By [hexchotomy region](https://en.wikipedia.org/wiki/Regions_of_Taiwan#Hexchotomy) ([6+1](../../labels/nidss_regions.txt))
+ - Spatial Resolution: By [hexchotomy region](https://en.wikipedia.org/wiki/Regions_of_Taiwan#Hexchotomy) ([6+1](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/nidss_regions.txt))
  - Open access
 
 \* Data is usually released on Tuesday
@@ -36,7 +36,7 @@ See [this documentation](README.md) for details on specifying epiweeks, dates, a
 | Parameter | Description | Type |
 | --- | --- | --- |
 | `epiweeks` | epiweeks | `list` of epiweeks |
-| `regions` | regions | `list` of [region](../../labels/nidss_regions.txt) labels |
+| `regions` | regions | `list` of [region](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/nidss_regions.txt) labels |
 
 ### Optional
 
diff --git a/docs/api/nowcast.md b/docs/api/nowcast.md
@@ -18,7 +18,7 @@ General topics not specific to any particular endpoint are discussed in the
 A nowcast of U.S. national, regional, and state-level (weighted) %ILI, available seven days (regionally) or five days (state-level) before the first ILINet report for the corresponding week.
  - Source: [Delphi's ILI Nearby system](https://delphi.cmu.edu/nowcast/)
  - Temporal Resolution: Weekly, from 2010w30*
- - Spatial Resolution: National, [HHS regions](http://www.hhs.gov/iea/regional/), [Census divisions](http://www.census.gov/econ/census/help/geography/regions_and_divisions.html) ([1+10+9](../../labels/regions.txt)), and by state/territory ([51](../../labels/states.txt))
+ - Spatial Resolution: National, [HHS regions](http://www.hhs.gov/iea/regional/), [Census divisions](http://www.census.gov/econ/census/help/geography/regions_and_divisions.html) ([1+10+9](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/regions.txt)), and by state/territory ([51](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/states.txt))
  - Open access
 
 \* Data is usually released on Friday and updated on Sunday and Monday
@@ -36,7 +36,7 @@ See [this documentation](README.md) for details on specifying epiweeks, dates, a
 | Parameter | Description | Type |
 | --- | --- | --- |
 | `epiweeks` | epiweeks | `list` of epiweeks |
-| `locations` | locations | `list` of [region](../../labels/regions.txt)/[state](../../labels/states.txt) labels |
+| `locations` | locations | `list` of [region](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/regions.txt)/[state](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/states.txt) labels |
 
 ## Response
 
diff --git a/docs/api/quidel.md b/docs/api/quidel.md
@@ -33,7 +33,7 @@ See [this documentation](README.md) for details on specifying epiweeks, dates, a
 | --- | --- | --- |
 | `auth` | password | string |
 | `epiweeks` | epiweeks | `list` of epiweeks |
-| `locations` | locations | `list` of `hhs<#>` [region](../../labels/regions.txt) labels |
+| `locations` | locations | `list` of `hhs<#>` [region](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/regions.txt) labels |
 
 ## Response
 
diff --git a/docs/api/sensors.md b/docs/api/sensors.md
@@ -40,7 +40,7 @@ See [this documentation](README.md) for details on specifying epiweeks, dates, a
 | Parameter | Description | Type |
 | --- | --- | --- |
 | `epiweeks` | epiweeks | `list` of epiweeks |
-| `locations` | locations | `list` of [region](../../labels/regions.txt)/[state](../../labels/states.txt) labels <!-- TODO: check --> |
+| `locations` | locations | `list` of [region](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/regions.txt)/[state](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/states.txt) labels <!-- TODO: check --> |
 | `names` | sensor names | `list` of string |
 
 Notes:
diff --git a/docs/api/twitter.md b/docs/api/twitter.md
@@ -18,7 +18,7 @@ General topics not specific to any particular endpoint are discussed in the
 Estimate of influenza activity based on analysis of language used in tweets.
  - Source: [HealthTweets](http://www.healthtweets.org/)
  - Temporal Resolution: Daily and weekly from 2011-12-01 (2011w48)
- - Spatial Resolution: National, [HHS regions](http://www.hhs.gov/iea/regional/), and [Census divisions](http://www.census.gov/econ/census/help/geography/regions_and_divisions.html) ([1+10+9](../../labels/regions.txt)); and by state/territory ([51](../../labels/states.txt))
+ - Spatial Resolution: National, [HHS regions](http://www.hhs.gov/iea/regional/), and [Census divisions](http://www.census.gov/econ/census/help/geography/regions_and_divisions.html) ([1+10+9](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/regions.txt)); and by state/territory ([51](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/states.txt))
  - Restricted access: Delphi doesn't have permission to share this dataset
 
 # The API
@@ -34,7 +34,7 @@ See [this documentation](README.md) for details on specifying epiweeks, dates, a
 | Parameter | Description | Type |
 | --- | --- | --- |
 | `auth` | password | string |
-| `locations` | locations | `list` of [region](../../labels/regions.txt)/[state](../../labels/states.txt) labels |
+| `locations` | locations | `list` of [region](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/regions.txt)/[state](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/states.txt) labels |
 | `dates` | dates | `list` of dates |
 | `epiweeks` | epiweeks | `list` of epiweeks |
 
diff --git a/docs/api/wiki.md b/docs/api/wiki.md
@@ -19,7 +19,7 @@ Number of page visits for selected English, Influenza-related wikipedia articles
  - Source: [Wikimedia](https://dumps.wikimedia.org/other/pagecounts-raw/)
  - Temporal Resolution: Hourly, daily, and weekly from 2007-12-09 (2007w50)
  - Spatial Resolution: N/A
- - Other resolution: By article ([54](../../labels/articles.txt))
+ - Other resolution: By article ([54](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/articles.txt))
  - Open access
 
 # The API
@@ -34,7 +34,7 @@ See [this documentation](README.md) for details on specifying epiweeks, dates, a
 
 | Parameter | Description | Type |
 | --- | --- | --- |
-| `articles` | articles | list of [articles](../../labels/articles.md) |
+| `articles` | articles | list of [articles](https://github.com/cmu-delphi/delphi-epidata/blob/main/labels/articles.md) |
 | `language` | language (currently `en`, `es`, and `pt` supported) | string |
 | `dates` | dates | `list` of dates |
 | `epiweeks` | epiweeks | `list` of epiweeks |
diff --git a/docs/epidata_development.md b/docs/epidata_development.md
@@ -69,10 +69,10 @@ These are both based on core Delphi images as defined in the
 above. The base images are built first, followed by the derived
 `epidata`-specific images.
 
-- The [`delphi_web_epidata` image](../dev/docker/web/epidata/README.md) adds
+- The [`delphi_web_epidata` image](https://github.com/cmu-delphi/delphi-epidata/blob/main/dev/docker/web/epidata/README.md) adds
   the Epidata API to the `delphi_web` image.
 - The
-  [`delphi_database_epidata` image](../dev/docker/database/epidata/README.md)
+  [`delphi_database_epidata` image](https://github.com/cmu-delphi/delphi-epidata/blob/main/dev/docker/database/epidata/README.md)
   adds the `epi` user account, `epidata` database, and relevant tables
   (initially empty) to the `delphi_database` image.
 
@@ -246,8 +246,8 @@ Here's a full example based on the `fluview` endpoint:
 Writing an integration test is outside of the scope of this document. However,
 a number of existing integration tests exist and can be used as a good starting
 point for additional tests. For example, see the tests for the
-[`fluview` API endpoint](../integrations/server/test_fluview.py) and the
-[`covidcast` ingestion pipeline](../integrations/acquisition/covidcast).
+[`fluview` API endpoint](https://github.com/cmu-delphi/delphi-epidata/blob/main/integrations/server/test_fluview.py) and the
+[`covidcast` ingestion pipeline](https://github.com/cmu-delphi/delphi-epidata/blob/main/integrations/acquisition/covidcast).
 
 To run the existing tests and any new tests that you write, you must
 follow the
@@ -365,15 +365,15 @@ The command above mounts two specific files into the image. It may be tempting
 to bind mount the `src/server` directory rather than specific files, however
 that is currently problematic for a couple of reasons:
 
-1. `server/.htaccess` [from the local repository](../src/server/.htaccess) uses
+1. `server/.htaccess` [from the local repository](https://github.com/cmu-delphi/delphi-epidata/blob/main/src/server/.htaccess) uses
   the `Header` directive. However, the webserver in the container doesn't have
   the corresponding module enabled. This causes the server to deny access to
   the API.
 2. `server/database_config.php`
-  [in the image](../dev/docker/web/epidata/assets/database_config.php) contains
+  [in the image](https://github.com/cmu-delphi/delphi-epidata/blob/main/dev//docker/web/epidata/assets/database_config.php) contains
   database credentials for use in conjunction with the
   `delphi_database_epidata` container during development. However, the same
-  file from [the local repository](../src/server/database_config.php) only
+  file from [the local repository](https://github.com/cmu-delphi/delphi-epidata/blob/main/src/server/database_config.php) only
   contains placeholder values. This prevents communication with the database.
 
 There is currently no benefit to bind-mounting sources into the database
diff --git a/docs/new_endpoint_tutorial.md b/docs/new_endpoint_tutorial.md
@@ -55,7 +55,7 @@ is to extract the subset of metadata pertaining to `fluview` and return just tha
 data through a new endpoint.
 
 Each row in the `fluview` table contains
-[a lot of data](../src/ddl/fluview.sql), but we're particularly interested in
+[a lot of data](https://github.com/cmu-delphi/delphi-epidata/blob/main/src/ddl/fluview.sql), but we're particularly interested in
 the following:
 
 - latest publication date
@@ -98,7 +98,7 @@ Here's what we add to each client:
     };
     ```
 
-- [`delphi_epidata.d.ts`](../src/client/delphi_epidata.d.ts)
+- [`delphi_epidata.d.ts`](https://github.com/cmu-delphi/delphi-epidata/blob/main/src/client/delphi_epidata.d.ts)
     ```typescript
     export interface EpidataFunctions {
       // ...
@@ -164,7 +164,7 @@ needs to be an integration test. See more about integration testing in Delphi's
 Create an integration test for the new endpoint by creating a new file,
 `integrations/server/test_fluview_meta.py`. There's a good amount of
 boilerplate, but fortunately, this can be copied _almost_ verbatim from the
-[`fluview` endpoint integration test](../integrations/server/test_fluview.py).
+[`fluview` endpoint integration test](https://github.com/cmu-delphi/delphi-epidata/blob/main/integrations/server/test_fluview.py).
 
 Include the following pieces:
 
