Add archiving views

DATABASES.md

@@ -16,15 +16,15 @@ Stores user agreements created in Genomics Status, connected to the cost calcula
 
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-## DEPRECATED: `analysis`
+## `application_categories`
 
-Summary statistics from various analysis, likely updated from `Piper` or similar since its not updated anymore. Likely stopped being updated around 2020 or similar.
+Listing our application categories and abrevation, with one document per application. Used by the statistics api of genstat which in turn feeds the dashboard.
 
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-## `application_categories`
+## `archiving_status`
 
-Listing our application categories and abrevation, with one document per application. Used by the statistics api of genstat which in turn feeds the dashboard.
+A database to track the archiving status of all flowcells handled by the encryption and archiving scripts introduced with Project Helix. Updated by dataflow_encrypt until the status is set to `encrypted`, and then by dataflow_archive which is run nightly.
 
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@@ -65,12 +65,6 @@ Flowcells database for the Element Bioisciences sequencing instrument. Created b
 
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-## DEPRECATED `expected_yields`
-
-One document per run mode and sequencer. Not sure where this is used.
-
----
-
 ## [NOT UPDATED] `flowcells`
 
 Illumina flowcells database used for pre HiSeq-X. Not updated after 2016. But still searchable in genstat and also likely possible to list in project lists.
@@ -167,10 +161,6 @@ Never made it into use, was supposed to keep track of sample requirements for di
 
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-## [DEPRECATED] `samples`
-
-Seems to track and document QC runs. Seems to have stopped udpating around 2016.
-
 ## `sensorpush`
 
 Uploades time series data for our freezers and fridges that are connected with a sensorpush sensor. One document per sensor and 24h. Data is uploaded by a script running on ngi_internal polling the sensorpush API. We suspect that the API isn't great and sometimes misses out data, but it could also be sensors that drop out.
@@ -191,12 +181,6 @@ Keeps track of which items have been added to the suggestion box. Keeps a link t
 
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-## [DEPRECATED] `taca_flowcells`
-
-Abandoned project for taca to uploade flowcells I think. Only one document and uploaded 2015.
-
----
-
 ## `userman`
 
 Database to keep track of the Charon users.

StatusDB_views/archiving_status/lookup/encrypted_runs.map.js

@@ -0,0 +1,5 @@
+function (doc) {
+  if (doc.status === "encrypted") {
+    emit(doc._id, doc.status);
+  }
+}

StatusDB_views/archiving_status/lookup/pending_runs.map.js

@@ -0,0 +1,5 @@
+function (doc) {
+  if (doc.status === "pending") {
+    emit(doc._id, doc.status);
+  }
+}

StatusDB_views/archiving_status/lookup/runfolder_id.map.js

@@ -0,0 +1,3 @@
+function (doc) {
+  emit(doc._id);
+}