Close stale/fixed issues.

Signed-off-by: Munyoki Kilyungi <me@bonfacemunyoki.com>

14 files changed, 61 insertions, 11 deletions

diff --git a/issues/autogenerate-documuntation-for-rdf.gmi b/issues/autogenerate-documuntation-for-rdf.gmi
index a86b0fe..f3f23b5 100644
--- a/issues/autogenerate-documuntation-for-rdf.gmi
+++ b/issues/autogenerate-documuntation-for-rdf.gmi
@@ -60,3 +60,5 @@ Example query to fetch all metadata about a species:
 ```
 
 Some current challenges I'm facing: in the case of "blank-nodes", how do I autogenerate the docs?
+
+* closed
diff --git a/issues/broken-build-xapian.gmi b/issues/broken-build-xapian.gmi
index 0b2731e..13595bd 100644
--- a/issues/broken-build-xapian.gmi
+++ b/issues/broken-build-xapian.gmi
@@ -12,3 +12,9 @@
 Broken Search from:
 
 => https://ci.genenetwork.org/jobs/genenetwork3-build-xapian-index/143 genenetwork3-build-xapian-index #143
+
+## Resolution
+
+Fixed---things currently work.
+
+* closed
diff --git a/issues/create-ui-language-for-gn2.gmi b/issues/create-ui-language-for-gn2.gmi
index 17adae0..add9b0e 100644
--- a/issues/create-ui-language-for-gn2.gmi
+++ b/issues/create-ui-language-for-gn2.gmi
@@ -15,3 +15,6 @@ New UI keeps spring up in the genenetwork eco-system. To make gn2 consistent, we
 ## Tasks
 
 - [ ] (bonfacem) Consult on how to do this
+
+
+* closed
diff --git a/issues/genenetwork/environment.gmi b/issues/genenetwork/environment.gmi
index e66550f..84ecf86 100644
--- a/issues/genenetwork/environment.gmi
+++ b/issues/genenetwork/environment.gmi
@@ -13,3 +13,9 @@ It somehow got reverted and is out of date. Please see if we can get a list agai
 * status: unclear
 * priority: medium
 * keywords: guix, packages, environments
+
+## Resolution
+
+Stale issue.
+
+* closed
diff --git a/issues/genotype-metadata.gmi b/issues/genotype-metadata.gmi
index 6b24c09..8e4b02a 100644
--- a/issues/genotype-metadata.gmi
+++ b/issues/genotype-metadata.gmi
@@ -9,3 +9,9 @@
 ## Description
 
 At the moment, you can only edit phenotype and probeset metadata.  We also need to put in place a way of editing genotype metadata and also displaying it in GN2.
+
+
+## Resolution
+This issue is being tackled by Fred as part of GN Editing.
+
+* closed
diff --git a/issues/improve-sparql-results.gmi b/issues/improve-sparql-results.gmi
index 591b861..f790ba5 100644
--- a/issues/improve-sparql-results.gmi
+++ b/issues/improve-sparql-results.gmi
@@ -27,3 +27,8 @@ For this query:
 
 => http://purl.uniprot.org/core/scientificName
 
+## Resolution
+
+GN Data transformation has been re-modelled from the ground up, so marking this as closed.
+
+* closed
diff --git a/issues/incorrect-pmids.gmi b/issues/incorrect-pmids.gmi
index f9e617b..427fbed 100644
--- a/issues/incorrect-pmids.gmi
+++ b/issues/incorrect-pmids.gmi
@@ -42,3 +42,9 @@ The above pmids are off.  Check:
 
 => https://pubmed.ncbi.nlm.nih.gov/14805/
 => https://pubmed.ncbi.nlm.nih.gov/15792/
+
+
+## Resolution
+This issue has been tackled elsewhere.
+
+* closed
diff --git a/issues/integrate-feed-analyser.gmi b/issues/integrate-feed-analyser.gmi
index 08bbd4e..27379db 100644
--- a/issues/integrate-feed-analyser.gmi
+++ b/issues/integrate-feed-analyser.gmi
@@ -18,3 +18,9 @@
 => https://github.com/genenetwork/genenetwork2/issues/400 From GitHub
 
 A re-write is warranted, when the time allows it, should be done.  ATM, the author - Munyoki - has picked up new tricks on how to get this done efficiently.  And in particular using machine-learning techniques picked up during his Master's degree.
+
+
+## Resolution
+We moved to Mastodon and Alex tackled this issue.
+
+* closed
diff --git a/issues/model-gn-menu-in-rdf.gmi b/issues/model-gn-menu-in-rdf.gmi
index 29b3199..65ecce3 100644
--- a/issues/model-gn-menu-in-rdf.gmi
+++ b/issues/model-gn-menu-in-rdf.gmi
@@ -14,3 +14,8 @@
 Read the following for more details:
 
 => https://github.com/genenetwork/gn-docs/blob/master/features/data-structures.md Data Structures
+
+## Resolution
+This issue will be tackled as port of a wider issue.
+
+* closed
diff --git a/issues/modelling-phenotype-data.gmi b/issues/modelling-phenotype-data.gmi
index 2d183f4..eafb5ed 100644
--- a/issues/modelling-phenotype-data.gmi
+++ b/issues/modelling-phenotype-data.gmi
@@ -135,3 +135,5 @@ Good curation: good description.
 * For private data, expose the pre-publication data.
 * Pre, post, published data with a tag of whether private or public and share with Rob/Arthur (in ms word).
 * Full time expert curator.  Automating this.
+
+* closed
diff --git a/issues/order-entries-in-csv-dump.gmi b/issues/order-entries-in-csv-dump.gmi
index a970273..946e078 100644
--- a/issues/order-entries-in-csv-dump.gmi
+++ b/issues/order-entries-in-csv-dump.gmi
@@ -7,3 +7,8 @@
 * keywords: csv, data
 
 Order entries in the CSV dump according to how they are ordered in the genotype files.  This way, it's consistent wrt how they appear.
+
+## Resolution
+This issue got stale.
+
+* closed
diff --git a/issues/review-auth-code.gmi b/issues/review-auth-code.gmi
index a9fb7ad..a7bc486 100644
--- a/issues/review-auth-code.gmi
+++ b/issues/review-auth-code.gmi
@@ -9,5 +9,7 @@
 
 Have a look at Fred's Auth code and in particular:
 
-* [ ] Set it up in a local development environment.
-* [ ] Improve documentation if it needs improvement
+* [X] Set it up in a local development environment.
+* [X] Improve documentation if it needs improvement
+
+* closed
diff --git a/issues/rework-settings.gmi b/issues/rework-settings.gmi
index 1f7628c..5873cbf 100644
--- a/issues/rework-settings.gmi
+++ b/issues/rework-settings.gmi
@@ -19,3 +19,5 @@ It's only used once in "wqflask/base/data_set/datasetgroup.py".  ATM, now we hav
 
 Getting rid of how we currently fetch settings will make things less complex, and we get rid of many "asserts".  This will force us to deal with missing values more gracefully; and as an example with how we handle missing values in global search using the Maybe Monad.
 
+
+* closed
diff --git a/tasks/bonfacem.gmi b/tasks/bonfacem.gmi
index 2aab05b..ff2c488 100644
--- a/tasks/bonfacem.gmi
+++ b/tasks/bonfacem.gmi
@@ -6,16 +6,10 @@
 * assigned: bonfacem
 * status: in progress
 
-## Tasks
-
-### Meta tasks
-
-This is @pjotr's list, do not remove!
-
-* [ ] get RDF example on testing and CD
-* [ ] get RDF example to production as a turtle dump and query code (virtuoso server is running)
-* [ ] final stages (meta)data editing GN2
+## October
+* [ ] Create a UI frontend for Pubi
 
+## Tasks
 ### On going tasks
 
 => https://issues.genenetwork.org/search?query=assigned%3Abonfacem+AND+tag%3Ain-progress+AND+is%3Aopen&type=open-issue All in-progress tasks