From 57696d32dfeab23816bd2c4f799b97240c4547b7 Mon Sep 17 00:00:00 2001
From: Graham Hukill <ghukill@gmail.com>
Date: Tue, 27 Jan 2026 09:39:56 -0500
Subject: [PATCH 1/3] Update dependencies

---
 Pipfile.lock | 1059 ++++++++++++++++++++++++++------------------------
 1 file changed, 552 insertions(+), 507 deletions(-)

diff --git a/Pipfile.lock b/Pipfile.lock
index 5b9dfac..16f7b4b 100644
--- a/Pipfile.lock
+++ b/Pipfile.lock
@@ -26,28 +26,28 @@
         },
         "boto3": {
             "hashes": [
-                "sha256:a5d005667b480c844ed3f814a59f199ce249d0f5669532a17d06200c0a93119c",
-                "sha256:bfcc665227bb4432a235cb4adb47719438d6472e5ccbf7f09512046c3f749670"
+                "sha256:4251bbac90e4a190680439973d9e9ed851e50292c10cd063c8bf0c365410ffe1",
+                "sha256:edbfbfbadd419e65888166dd044786d4b731cf60abeb2301b73e775e154d7c5e"
             ],
             "index": "pypi",
             "markers": "python_version >= '3.9'",
-            "version": "==1.42.14"
+            "version": "==1.42.35"
         },
         "botocore": {
             "hashes": [
-                "sha256:cf5bebb580803c6cfd9886902ca24834b42ecaa808da14fb8cd35ad523c9f621",
-                "sha256:efe89adfafa00101390ec2c371d453b3359d5f9690261bc3bd70131e0d453e8e"
+                "sha256:40a6e0f16afe9e5d42e956f0b6d909869793fadb21780e409063601fc3d094b8",
+                "sha256:b89f527987691abbd1374c4116cc2711471ce48e6da502db17e92b17b2af8d47"
             ],
             "markers": "python_version >= '3.9'",
-            "version": "==1.42.14"
+            "version": "==1.42.35"
         },
         "certifi": {
             "hashes": [
-                "sha256:97de8790030bbd5c2d96b7ec782fc2f7820ef8dba6db909ccf95449f2d062d4b",
-                "sha256:d8ab5478f2ecd78af242878415affce761ca6bc54a22a27e026d7c25357c3316"
+                "sha256:9943707519e4add1115f44c2bc244f782c0249876bf51b6599fee1ffbedd685c",
+                "sha256:ac726dd470482006e014ad384921ed6438c457018f4b3d204aea4281258b2120"
             ],
             "markers": "python_version >= '3.7'",
-            "version": "==2025.11.12"
+            "version": "==2026.1.4"
         },
         "charset-normalizer": {
             "hashes": [
@@ -179,50 +179,50 @@
         },
         "duckdb": {
             "hashes": [
-                "sha256:006aca6a6d6736c441b02ff5c7600b099bb8b7f4de094b8b062137efddce42df",
-                "sha256:130c6760f6c573f9c9fe9aba56adba0fab48811a4871b7b8fd667318b4a3e8da",
-                "sha256:16952ac05bd7e7b39946695452bf450db1ebbe387e1e7178e10f593f2ea7b9a8",
-                "sha256:1b35491db98ccd11d151165497c084a9d29d3dc42fc80abea2715a6c861ca43d",
-                "sha256:1b9b445970fd18274d5ac07a0b24c032e228f967332fb5ebab3d7db27738c0e4",
-                "sha256:1bb8bd5a3dd205983726185b280a211eacc9f5bc0c4d4505bec8c87ac33a8ccb",
-                "sha256:1e5457dda91b67258aae30fb1a0df84183a9f6cd27abac1d5536c0d876c6dfa1",
-                "sha256:20c88effaa557a11267706b01419c542fe42f893dee66e5a6daa5974ea2d4a46",
-                "sha256:23a3a077821bed1768a84ac9cbf6b6487ead33e28e62cb118bda5fb8f9e53dea",
-                "sha256:23b12854032c1a58d0452e2b212afa908d4ce64171862f3792ba9a596ba7c765",
-                "sha256:274d4a31aba63115f23e7e7b401e3e3a937f3626dc9dea820a9c7d3073f450d2",
-                "sha256:2b195270ff1a661f22cbd547a215baff265b7d4469a76a215c8992b5994107c3",
-                "sha256:2b30245375ea94ab528c87c61fc3ab3e36331180b16af92ee3a37b810a745d24",
-                "sha256:316711a9e852bcfe1ed6241a5f654983f67e909e290495f3562cccdf43be8180",
-                "sha256:366bf607088053dce845c9d24c202c04d78022436cc5d8e4c9f0492de04afbe7",
-                "sha256:4f868a7e6d9b37274a1aa34849ea92aa964e9bd59a5237d6c17e8540533a1e4f",
-                "sha256:4fef6a053a1c485292000bf0c338bba60f89d334f6a06fc76ba4085a5a322b76",
-                "sha256:5634e40e1e2d972e4f75bced1fbdd9e9e90faa26445c1052b27de97ee546944a",
-                "sha256:6302452e57aef29aae3977063810ed7b2927967b97912947b9cca45c1c21955f",
-                "sha256:6db124f53a3edcb32b0a896ad3519e37477f7e67bf4811cb41ab60c1ef74e4c8",
-                "sha256:702dabbc22b27dc5b73e7599c60deef3d8c59968527c36b391773efddd8f4cf1",
-                "sha256:813f189039b46877b5517f1909c7b94a8fe01b4bde2640ab217537ea0fe9b59b",
-                "sha256:854b79375fa618f6ffa8d84fb45cbc9db887f6c4834076ea10d20bc106f1fd90",
-                "sha256:8afba22c370f06b7314aa46bfed052509269e482bcfb3f7b1ea0fa17ae49ce42",
-                "sha256:8d080e8d1bf2d226423ec781f539c8f6b6ef3fd42a9a58a7160de0a00877a21f",
-                "sha256:8d53b217698a76c4957e2c807dd9295d409146f9d3d7932f372883201ba9d25a",
-                "sha256:90f241f25cffe7241bf9f376754a5845c74775e00e1c5731119dc88cd71e0cb2",
-                "sha256:9dc049ba7e906cb49ca2b6d4fbf7b6615ec3883193e8abb93f0bef2652e42dda",
-                "sha256:9e625b2b4d52bafa1fd0ebdb0990c3961dac8bb00e30d327185de95b68202131",
-                "sha256:a2813f4635f4d6681cc3304020374c46aca82758c6740d7edbc237fe3aae2744",
-                "sha256:a7c864df027da1ee95f0c32def67e15d02cd4a906c9c1cbae82c09c5112f526b",
-                "sha256:a8b0a8764e1b5dd043d168c8f749314f7a1252b5a260fa415adaa26fa3b958fd",
-                "sha256:aa26a7406205bc1426cee28bdfdf084f669a5686977dafa4c3ec65873989593c",
-                "sha256:caa2164c91f7e91befb1ffb081b3cd97a137117533aef7abe1538b03ad72e3a9",
-                "sha256:d0ff08388ef8b1d1a4c95c321d6c5fa11201b241036b1ee740f9d841df3d6ba2",
-                "sha256:de984cd24a6cbefdd6d4a349f7b9a46e583ca3e58ce10d8def0b20a6e5fcbe78",
-                "sha256:deab351ac43b6282a3270e3d40e3d57b3b50f472d9fd8c30975d88a31be41231",
-                "sha256:ef7ef15347ce97201b1b5182a5697682679b04c3374d5a01ac10ba31cf791b95",
-                "sha256:efa7f1191c59e34b688fcd4e588c1b903a4e4e1f4804945902cf0b20e08a9001",
-                "sha256:fbc63ffdd03835f660155b37a1b6db2005bcd46e5ad398b8cac141eb305d2a3d",
-                "sha256:fea43e03604c713e25a25211ada87d30cd2a044d8f27afab5deba26ac49e5268"
+                "sha256:0509b39ea7af8cff0198a99d206dca753c62844adab54e545984c2e2c1381616",
+                "sha256:0d636ceda422e7babd5e2f7275f6a0d1a3405e6a01873f00d38b72118d30c10b",
+                "sha256:1af6e76fe8bd24875dc56dd8e38300d64dc708cd2e772f67b9fbc635cc3066a3",
+                "sha256:1f8d55843cc940e36261689054f7dfb6ce35b1f5b0953b0d355b6adb654b0d52",
+                "sha256:25874f8b1355e96178079e37312c3ba6d61a2354f51319dae860cf21335c3a20",
+                "sha256:337f8b24e89bc2e12dadcfe87b4eb1c00fd920f68ab07bc9b70960d6523b8bc3",
+                "sha256:452c5b5d6c349dc5d1154eb2062ee547296fcbd0c20e9df1ed00b5e1809089da",
+                "sha256:453b115f4777467f35103d8081770ac2f223fb5799178db5b06186e3ab51d1f2",
+                "sha256:47dd4162da6a2be59a0aef640eb08d6360df1cf83c317dcc127836daaf3b7f7c",
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+                "sha256:4c25d5b0febda02b7944e94fdae95aecf952797afc8cb920f677b46a7c251955",
+                "sha256:50f2eb173c573811b44aba51176da7a4e5c487113982be6a6a1c37337ec5fa57",
+                "sha256:53cd6423136ab44383ec9955aefe7599b3fb3dd1fe006161e6396d8167e0e0d4",
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+                "sha256:5cdc4126ec925edf3112bc656ac9ed23745294b854935fa7a643a216e4455af6",
+                "sha256:5e1933fac5293fea5926b0ee75a55b8cfe7f516d867310a5b251831ab61fe62b",
+                "sha256:6703dd1bb650025b3771552333d305d62ddd7ff182de121483d4e042ea6e2e00",
+                "sha256:6792ca647216bd5c4ff16396e4591cfa9b4a72e5ad7cdd312cec6d67e8431a7c",
+                "sha256:6cb357cfa3403910e79e2eb46c8e445bb1ee2fd62e9e9588c6b999df4256abc1",
+                "sha256:6fb1225a9ea5877421481d59a6c556a9532c32c16c7ae6ca8d127e2b878c9389",
+                "sha256:707530f6637e91dc4b8125260595299ec9dd157c09f5d16c4186c5988bfbd09a",
+                "sha256:7df7351328ffb812a4a289732f500d621e7de9942a3a2c9b6d4afcf4c0e72526",
+                "sha256:7eec0bf271ac622e57b7f6554a27a6e7d1dd2f43d1871f7962c74bcbbede15ba",
+                "sha256:8097201bc5fd0779d7fcc2f3f4736c349197235f4cb7171622936343a1aa8dbf",
+                "sha256:8bba52fd2acb67668a4615ee17ee51814124223de836d9e2fdcbc4c9021b3d3c",
+                "sha256:8e5c2d8a0452df55e092959c0bfc8ab8897ac3ea0f754cb3b0ab3e165cd79aff",
+                "sha256:a3c8542db7ffb128aceb7f3b35502ebaddcd4f73f1227569306cc34bad06680c",
+                "sha256:b297eff642503fd435a9de5a9cb7db4eccb6f61d61a55b30d2636023f149855f",
+                "sha256:bf138201f56e5d6fc276a25138341b3523e2f84733613fc43f02c54465619a95",
+                "sha256:c65d15c440c31e06baaebfd2c06d71ce877e132779d309f1edf0a85d23c07e92",
+                "sha256:c9566a4ed834ec7999db5849f53da0a7ee83d86830c33f471bf0211a1148ca12",
+                "sha256:cd1be3d48577f5b40eb9706c6b2ae10edfe18e78eb28e31a3b922dcff1183597",
+                "sha256:d0440f59e0cd9936a9ebfcf7a13312eda480c79214ffed3878d75947fc3b7d6d",
+                "sha256:d525de5f282b03aa8be6db86b1abffdceae5f1055113a03d5b50cd2fb8cf2ef8",
+                "sha256:ddcfd9c6ff234da603a1edd5fd8ae6107f4d042f74951b65f91bc5e2643856b3",
+                "sha256:e041f2fbd6888da090eca96ac167a7eb62d02f778385dd9155ed859f1c6b6dc8",
+                "sha256:e870a441cb1c41d556205deb665749f26347ed13b3a247b53714f5d589596977",
+                "sha256:f28a18cc790217e5b347bb91b2cab27aafc557c58d3d8382e04b4fe55d0c3f66",
+                "sha256:fb94de6d023de9d79b7edc1ae07ee1d0b4f5fa8a9dcec799650b5befdf7aafec"
             ],
             "markers": "python_full_version >= '3.9.0'",
-            "version": "==1.4.3"
+            "version": "==1.4.4"
         },
         "duckdb-engine": {
             "hashes": [
@@ -350,11 +350,11 @@
         },
         "jmespath": {
             "hashes": [
-                "sha256:02e2e4cc71b5bcab88332eebf907519190dd9e6e82107fa7f83b1003a6252980",
-                "sha256:90261b206d6defd58fdd5e85f478bf633a2901798906be2ad389150c5c60edbe"
+                "sha256:472c87d80f36026ae83c6ddd0f1d05d4e510134ed462851fd5f754c8c3cbb88d",
+                "sha256:a5663118de4908c91729bea0acadca56526eb2698e83de10cd116ae0f4e97c64"
             ],
-            "markers": "python_version >= '3.7'",
-            "version": "==1.0.1"
+            "markers": "python_version >= '3.9'",
+            "version": "==1.1.0"
         },
         "markdown-it-py": {
             "hashes": [
@@ -374,81 +374,81 @@
         },
         "numpy": {
             "hashes": [
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@@ -461,11 +461,11 @@
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@@ -617,20 +617,20 @@
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@@ -642,12 +642,12 @@
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@@ -733,7 +733,7 @@
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@@ -753,11 +753,11 @@
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@@ -884,37 +884,37 @@
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@@ -925,20 +925,20 @@
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@@ -953,11 +953,11 @@
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@@ -1099,101 +1099,101 @@
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@@ -1292,12 +1292,12 @@
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@@ -1816,37 +1856,37 @@
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+                "sha256:bbb1b10aa643d973366dc2cb1ad94f99c1726a02343d43cbc011edbfac579e7c",
+                "sha256:c084ad935abe686bd9c898e62a02a19abfc9760b5a79bc29644463eaf2840cb0",
+                "sha256:c73add4bb52a206fd0c0723432db123c0c75c280cbd67174dd9d2db228ebb1b4",
+                "sha256:cae9c19ed12d4e8f3ebf46d1a75090e4c0dc16271c5bce1c833ac168f08fb614",
+                "sha256:d20b797a5c1ad80c516e41bc1fb0443ddb5006e9aaa7bda2d71978346aeb9132",
+                "sha256:d3d1654e11d724760cdb37a3d7691f0be9db5fbdaef59c9f532aabf87006dbaa",
+                "sha256:d878f2a6707cc9d53a1be1414bbb419e629c3d6e67f69230217bb663e76b5087"
             ],
             "markers": "python_version >= '3.8'",
-            "version": "==2.3.0"
+            "version": "==2.4.0"
         },
         "tomli-w": {
             "hashes": [
@@ -1936,11 +1981,11 @@
         },
         "types-awscrt": {
             "hashes": [
-                "sha256:362fd8f5eaebcfcd922cb9fd8274fb375df550319f78031ee3779eac0b9ecc79",
-                "sha256:8204126e01a00eaa4a746e7a0076538ca0e4e3f52408adec0ab9b471bb0bb64b"
+                "sha256:08b13494f93f45c1a92eb264755fce50ed0d1dc75059abb5e31670feb9a09724",
+                "sha256:7e4364ac635f72bd57f52b093883640b1448a6eded0ecbac6e900bf4b1e4777b"
             ],
             "markers": "python_version >= '3.8'",
-            "version": "==0.30.0"
+            "version": "==0.31.1"
         },
         "types-s3transfer": {
             "hashes": [
@@ -1960,36 +2005,36 @@
         },
         "urllib3": {
             "hashes": [
-                "sha256:016f9c98bb7e98085cb2b4b17b87d2c702975664e4f060c6532e64d1c1a5e797",
-                "sha256:ec21cddfe7724fc7cb4ba4bea7aa8e2ef36f607a4bab81aa6ce42a13dc3f03dd"
+                "sha256:1b62b6884944a57dbe321509ab94fd4d3b307075e0c2eae991ac71ee15ad38ed",
+                "sha256:bf272323e553dfb2e87d9bfd225ca7b0f467b919d7bbd355436d3fd37cb0acd4"
             ],
             "markers": "python_version >= '3.9'",
-            "version": "==2.6.2"
+            "version": "==2.6.3"
         },
         "vcrpy": {
             "hashes": [
-                "sha256:e585ca3cd9bb751e402728a00394847561250588eebc047b4d3c8948d5487733",
-                "sha256:fc4fb6e954c6d082ba6d329c6f3d1228f5b1b1d2836f9022c301b587cfad7378"
+                "sha256:2d16f31ad56493efb6165182dd99767207031b0da3f68b18f975545ede8ac4b9",
+                "sha256:58e3053e33b423f3594031cb758c3f4d1df931307f1e67928e30cf352df7709f"
             ],
             "index": "pypi",
             "markers": "python_version >= '3.10'",
-            "version": "==8.1.0"
+            "version": "==8.1.1"
         },
         "virtualenv": {
             "hashes": [
-                "sha256:643d3914d73d3eeb0c552cbb12d7e82adf0e504dbf86a3182f8771a153a1971c",
-                "sha256:c21c9cede36c9753eeade68ba7d523529f228a403463376cf821eaae2b650f1b"
+                "sha256:575a8d6b124ef88f6f51d56d656132389f961062a9177016a50e4f507bbcc19f",
+                "sha256:8befb5c81842c641f8ee658481e42641c68b5eab3521d8e092d18320902466ba"
             ],
             "markers": "python_version >= '3.8'",
-            "version": "==20.35.4"
+            "version": "==20.36.1"
         },
         "wcwidth": {
             "hashes": [
-                "sha256:4d478375d31bc5395a3c55c40ccdf3354688364cd61c4f6adacaa9215d0b3605",
-                "sha256:a7bb560c8aee30f9957e5f9895805edd20602f2d7f720186dfd906e82b4982e1"
+                "sha256:46478e02cf7149ba150fb93c39880623ee7e5181c64eda167b6a1de51b7a7ba1",
+                "sha256:8af2c81174b3aa17adf05058c543c267e4e5b6767a28e31a673a658c1d766783"
             ],
-            "markers": "python_version >= '3.6'",
-            "version": "==0.2.14"
+            "markers": "python_version >= '3.8'",
+            "version": "==0.4.0"
         },
         "wrapt": {
             "hashes": [

From 3bb9b745254396296a73f7416074a4d7836e8c68 Mon Sep 17 00:00:00 2001
From: Graham Hukill <ghukill@gmail.com>
Date: Tue, 27 Jan 2026 11:07:27 -0500
Subject: [PATCH 2/3] Bulk update source with current source embeddings

Why these changes are being introduced:

The first pass at bulk updating pre-existing documents, encapsulated in the
command `bulk-update-embeddings` required passing a `--run-id` to target a specific
ETL run.  This aligns with the most common use case of indexing embeddings within
an ETL run.

However, we have use cases now for indexing all current embeddings for a given source
into Opensearch.  These current embeddings may span multiple ETL runs.

How this addresses that need:

Updates the `bulk-update-embeddings` CLI command to require only `--source`,
defaulting to retrieving all current embeddings for that source.  This logic is
identical to what `reindex-source` was already doing, but is decoupled from
re-indexing the documents themselves which is not always required.

While working on this, it was decided that raising an exception for a missing
document when performing updates is not ideal.  Some sources have indexing issues,
and we have historically skipped those records.  When we get to bulk updates, it's
possible that we have embeddings for documents that were never indexed; we will log
and skip them now in a similar fashion.

Side effects of this change:
* CLI supports ad-hoc indexing of all current embeddings for a source

Relevant ticket(s):
* https://mitlibraries.atlassian.net/browse/USE-355
---
 ...k_operation_error_if_record_not_found.yaml | 22 +++++++++
 tests/test_cli.py                             | 31 ++++++++++++
 tests/test_opensearch.py                      | 13 +++--
 tim/cli.py                                    | 49 +++++++++++++------
 tim/opensearch.py                             |  5 +-
 5 files changed, 101 insertions(+), 19 deletions(-)

diff --git a/tests/fixtures/cassettes/opensearch/bulk_update_raises_bulk_operation_error_if_record_not_found.yaml b/tests/fixtures/cassettes/opensearch/bulk_update_raises_bulk_operation_error_if_record_not_found.yaml
index c7a3db5..65be9e3 100644
--- a/tests/fixtures/cassettes/opensearch/bulk_update_raises_bulk_operation_error_if_record_not_found.yaml
+++ b/tests/fixtures/cassettes/opensearch/bulk_update_raises_bulk_operation_error_if_record_not_found.yaml
@@ -27,4 +27,26 @@ interactions:
     status:
       code: 200
       message: OK
+- request:
+    body: null
+    headers:
+      Content-Length:
+      - '0'
+      content-type:
+      - application/json
+      user-agent:
+      - opensearch-py/2.8.0 (Python 3.12.2)
+    method: POST
+    uri: http://localhost:9200/test-index/_refresh
+  response:
+    body:
+      string: '{"_shards":{"total":2,"successful":1,"failed":0}}'
+    headers:
+      content-length:
+      - '49'
+      content-type:
+      - application/json; charset=UTF-8
+    status:
+      code: 200
+      message: OK
 version: 1
diff --git a/tests/test_cli.py b/tests/test_cli.py
index 07a6546..9dc6ebb 100644
--- a/tests/test_cli.py
+++ b/tests/test_cli.py
@@ -341,6 +341,37 @@ def test_bulk_update_embeddings_exit_bulk_operation_error(
     assert "Bulk update with embeddings failed" in caplog.text
 
 
+@patch("tim.helpers.validate_bulk_cli_options")
+@patch("tim.opensearch.bulk_update")
+def test_bulk_update_embeddings_source_only_logs_complete(
+    mock_bulk_update,
+    mock_validate_bulk_cli_options,
+    caplog,
+    monkeypatch,
+    runner,
+):
+    monkeypatch.delenv("TIMDEX_OPENSEARCH_ENDPOINT", raising=False)
+    bulk_update_return = {"updated": 1, "errors": 0, "total": 1}
+    mock_bulk_update.return_value = bulk_update_return
+    mock_validate_bulk_cli_options.return_value = "libguides"
+
+    result = runner.invoke(
+        main,
+        [
+            "bulk-update-embeddings",
+            "--source",
+            "libguides",
+            "tests/fixtures/dataset",
+        ],
+    )
+
+    assert result.exit_code == EXIT_CODES["success"]
+    assert (
+        f"Bulk update with embeddings complete: {json.dumps(bulk_update_return)}"
+        in caplog.text
+    )
+
+
 @patch("tim.opensearch.create_index")
 @patch("tim.opensearch.promote_index")
 @patch("tim.opensearch.get_index_aliases")
diff --git a/tests/test_opensearch.py b/tests/test_opensearch.py
index e214dd4..3bd473b 100644
--- a/tests/test_opensearch.py
+++ b/tests/test_opensearch.py
@@ -9,7 +9,6 @@
 from tim.config import PRIMARY_ALIAS
 from tim.errors import (
     AliasNotFoundError,
-    BulkOperationError,
     IndexExistsError,
     IndexNotFoundError,
 )
@@ -553,7 +552,8 @@ def test_bulk_update_updates_records(test_opensearch_client):
 @my_vcr.use_cassette(
     "opensearch/bulk_update_raises_bulk_operation_error_if_record_not_found.yaml"
 )
-def test_bulk_update_raises_bulk_operation_error_if_record_not_found(
+def test_bulk_update_records_error_record_not_found(
+    caplog,
     test_opensearch_client,
 ):
     updates = [
@@ -562,5 +562,10 @@ def test_bulk_update_raises_bulk_operation_error_if_record_not_found(
             "title": "Materials Science & Engineering (UPDATED)",
         }
     ]
-    with pytest.raises(BulkOperationError):
-        tim_os.bulk_update(test_opensearch_client, "test-index", iter(updates))
+    results = tim_os.bulk_update(test_opensearch_client, "test-index", iter(updates))
+    assert results["errors"] == 1
+    assert (
+        """Error updating record 'i-am-not-found'. """
+        """Details: {"type": "document_missing_exception", """
+        """"reason": "[i-am-not-found]: document missing","""
+    ) in caplog.text
diff --git a/tim/cli.py b/tim/cli.py
index 58219bd..2f1748d 100644
--- a/tim/cli.py
+++ b/tim/cli.py
@@ -339,11 +339,16 @@ def bulk_update(
     "--source",
     type=click.Choice(VALID_SOURCES),
     help=(
-        "Source whose primary-aliased index will receive the bulk updated "
-        "records with embeddings."
+        "Source whose primary-aliased index will receive the bulk updated records with "
+        "embeddings.  If --run-id is not passed, all current embeddings for this source "
+        "will be used."
     ),
 )
-@click.option("-rid", "--run-id", required=True, help="Run ID.")
+@click.option(
+    "-rid",
+    "--run-id",
+    help="Limit to embeddings for a specific TIMDEX ETL run.",
+)
 @click.argument("dataset_path", type=click.Path())
 @click.pass_context
 def bulk_update_embeddings(
@@ -376,17 +381,31 @@ def bulk_update_embeddings(
 
     td = TIMDEXDataset(location=dataset_path)
 
-    # bulk index embeddings
-    embeddings = td.embeddings.read_dicts_iter(
-        table="current_run_embeddings",
-        columns=[
-            "timdex_record_id",
-            "embedding_strategy",
-            "embedding_object",
-        ],
-        run_id=run_id,
-        action="index",
-    )
+    # read embeddings for a specific run
+    if run_id:
+        embeddings = td.embeddings.read_dicts_iter(
+            table="current_run_embeddings",
+            columns=[
+                "timdex_record_id",
+                "embedding_strategy",
+                "embedding_object",
+            ],
+            run_id=run_id,
+            action="index",
+        )
+    # default: read current embeddings for a source
+    else:
+        embeddings = td.embeddings.read_dicts_iter(
+            table="current_embeddings",
+            source=source,
+            columns=[
+                "timdex_record_id",
+                "embedding_strategy",
+                "embedding_object",
+            ],
+            action="index",
+        )
+
     embeddings_to_index = helpers.format_embeddings(embeddings)
 
     try:
@@ -458,6 +477,7 @@ def reindex_source(
     td = TIMDEXDataset(location=dataset_path)
 
     # bulk index records
+    logger.info("Reindexing records.")
     index_results = {"created": 0, "updated": 0, "errors": 0, "total": 0}
     records_to_index = td.read_transformed_records_iter(
         table="current_records",
@@ -470,6 +490,7 @@ def reindex_source(
         logger.error(f"Bulk indexing failed: {exception}")  # noqa: TRY400
 
     # bulk index embeddings
+    logger.info("Reindexing embeddings.")
     update_results = {"updated": 0, "errors": 0, "total": 0}
     embeddings = td.embeddings.read_dicts_iter(
         table="current_embeddings",
diff --git a/tim/opensearch.py b/tim/opensearch.py
index 76cc631..b3011b2 100644
--- a/tim/opensearch.py
+++ b/tim/opensearch.py
@@ -445,7 +445,10 @@ def bulk_update(
         if response[0] is False:
             error = response[1]["update"]["error"]
             record = response[1]["update"]["_id"]
-            if error["type"] == "mapper_parsing_exception":
+            if error["type"] in [
+                "mapper_parsing_exception",
+                "document_missing_exception",
+            ]:
                 logger.error(
                     "Error updating record '%s'. Details: %s",
                     record,

From 944c3821d5689c4e96455f532dd7c53655347412 Mon Sep 17 00:00:00 2001
From: Graham Hukill <ghukill@gmail.com>
Date: Tue, 27 Jan 2026 11:32:28 -0500
Subject: [PATCH 3/3] Handle noop (no operation) updates

Why these changes are being introduced:

When bulk updating documents the result can be "noop" which means
no operation was performed.  This can happen if the update would have zero
effect.

How this addresses that need:

Handle `result=noop` during bulk updates and set a new "skipped" result
counter in the results.

Side effects of this change:
* None

Relevant ticket(s):
* https://mitlibraries.atlassian.net/browse/USE-355
---
 tests/test_opensearch.py | 1 +
 tim/cli.py               | 8 +++-----
 tim/opensearch.py        | 4 +++-
 3 files changed, 7 insertions(+), 6 deletions(-)

diff --git a/tests/test_opensearch.py b/tests/test_opensearch.py
index 3bd473b..40b9585 100644
--- a/tests/test_opensearch.py
+++ b/tests/test_opensearch.py
@@ -544,6 +544,7 @@ def test_bulk_update_updates_records(test_opensearch_client):
     ]
     assert tim_os.bulk_update(test_opensearch_client, "test-index", iter(updates)) == {
         "updated": 1,
+        "skipped": 0,
         "errors": 0,
         "total": 1,
     }
diff --git a/tim/cli.py b/tim/cli.py
index 2f1748d..093a94d 100644
--- a/tim/cli.py
+++ b/tim/cli.py
@@ -377,8 +377,6 @@ def bulk_update_embeddings(
         f"into '{index}'"
     )
 
-    update_results = {"updated": 0, "errors": 0, "total": 0}
-
     td = TIMDEXDataset(location=dataset_path)
 
     # read embeddings for a specific run
@@ -409,13 +407,13 @@ def bulk_update_embeddings(
     embeddings_to_index = helpers.format_embeddings(embeddings)
 
     try:
-        update_results.update(tim_os.bulk_update(client, index, embeddings_to_index))
+        update_results = tim_os.bulk_update(client, index, embeddings_to_index)
+        logger.info(f"Bulk update with embeddings complete: {json.dumps(update_results)}")
+
     except BulkOperationError as exception:
         logger.error(f"Bulk update with embeddings failed: {exception}")  # noqa: TRY400
         ctx.exit(1)
 
-    logger.info(f"Bulk update with embeddings complete: {json.dumps(update_results)}")
-
 
 @main.command()
 @click.option(
diff --git a/tim/opensearch.py b/tim/opensearch.py
index b3011b2..090f064 100644
--- a/tim/opensearch.py
+++ b/tim/opensearch.py
@@ -433,7 +433,7 @@ def bulk_update(
     Returns total sums of: records updated, errors, and total records
     processed.
     """
-    result = {"updated": 0, "errors": 0, "total": 0}
+    result = {"updated": 0, "skipped": 0, "errors": 0, "total": 0}
     actions = helpers.generate_bulk_actions(index, records, "update")
     responses = streaming_bulk(
         client,
@@ -461,6 +461,8 @@ def bulk_update(
                 )
         elif response[1]["update"].get("result") == "updated":
             result["updated"] += 1
+        elif response[1]["update"].get("result") == "noop":
+            result["skipped"] += 1
         else:
             logger.error(
                 "Something unexpected happened during update. Bulk update response: %s",