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chore(deps): update all non-major dependencies #162

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12 changes: 6 additions & 6 deletions charts/onco-analytics-on-fhir/Chart.lock
Original file line number Diff line number Diff line change
@@ -1,15 +1,15 @@
dependencies:
- name: akhq
repository: https://akhq.io/
version: 0.24.0
version: 0.25.1
- name: stream-processors
repository: https://miracum.github.io/charts
version: 1.6.0
version: 1.7.31
- name: hapi-fhir-jpaserver
repository: https://hapifhir.github.io/hapi-fhir-jpaserver-starter
version: 0.15.0
version: 0.17.1
- name: fhir-gateway
repository: https://miracum.github.io/charts
version: 6.2.0
digest: sha256:a8beeea01663ba075258174948eee1c377bdbf1cb70252c01e188003f477bd18
generated: "2024-02-22T07:51:46.369204628Z"
version: 6.3.72
digest: sha256:c4e40b250a8d1e32797a7ca0a5a1d78df24c3c23d67251d49067898202a8689d
generated: "2024-12-25T12:38:41.442338351Z"
8 changes: 4 additions & 4 deletions charts/onco-analytics-on-fhir/Chart.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -8,19 +8,19 @@ dependencies:
- name: akhq
condition: akhq.enabled
repository: https://akhq.io/
version: 0.24.0
version: 0.25.1
- condition: stream-processors.enabled
name: stream-processors
repository: https://miracum.github.io/charts
version: 1.6.0
version: 1.7.31
- condition: hapi-fhir-jpaserver.enabled
name: hapi-fhir-jpaserver
repository: https://hapifhir.github.io/hapi-fhir-jpaserver-starter
version: 0.15.0
version: 0.17.1
- condition: fhir-gateway.enabled
name: fhir-gateway
repository: https://miracum.github.io/charts
version: 6.2.0
version: 6.3.72
# x-release-please-start-version
version: 2.3.1
appVersion: 2.3.1
Expand Down
4 changes: 2 additions & 2 deletions charts/onco-analytics-on-fhir/values.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -107,7 +107,7 @@ stream-processors:
image:
registry: ghcr.io
repository: miracum/kafka-fhir-to-server
tag: v2.0.6@sha256:155859d275b636e356a99dac3592aa602eef6b68a8f1fe82f7e9670e2be1ef33
tag: v2.2.1@sha256:c23d6e12f3cb63500384ff4fd4e69dc4feaef162e9250ecf66cde0080b42544e
pullPolicy: IfNotPresent
env:
- name: FHIR_URL
Expand Down Expand Up @@ -137,7 +137,7 @@ stream-processors:
image:
registry: ghcr.io
repository: miracum/obds-to-fhir
tag: v2.0.15@sha256:c359ef5449068ff0c1231c3ee237801f2fb76932ab9a16386813d02c07ac9f7d
tag: v2.1.0@sha256:6752d517b423388cce447aaca75a714034bc0a7c0f545c9111d5e45a126fab89
pullPolicy: IfNotPresent
env:
- name: OPENTRACING_JAEGER_ENABLED
Expand Down
6 changes: 3 additions & 3 deletions charts/prerequisites/Chart.lock
Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
dependencies:
- name: strimzi-kafka-operator
repository: oci://quay.io/strimzi-helm
version: 0.39.0
digest: sha256:c986c32b5483a8d395c49960c179f12d775ce5ef2c55ac5cb63f376d9fc97660
generated: "2024-01-11T20:52:49.55346174Z"
version: 0.45.0
digest: sha256:959baa93649acab470a3448399f434a4b8351b39fce70912322f2708e3d4a94b
generated: "2024-12-25T12:38:58.451814333Z"
2 changes: 1 addition & 1 deletion charts/prerequisites/Chart.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -7,7 +7,7 @@ kubeVersion: ">= 1.21.0"
dependencies:
- name: strimzi-kafka-operator
repository: oci://quay.io/strimzi-helm
version: 0.39.0
version: 0.45.0
# x-release-please-start-version
version: 2.3.1
appVersion: 2.3.1
Expand Down
2 changes: 1 addition & 1 deletion docker-compose/compose.fhir-server.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -35,7 +35,7 @@ services:
- "8082:8080"

fhir-db:
image: docker.io/library/postgres:15.6@sha256:1ebd963e5c598f944a4e9ba27de4c95289d663dcc73731025aa53c5254094d8f
image: docker.io/library/postgres:15.10@sha256:06dd85a64e950719a3ee8435ce1bdc32b5f8acf406185d7ff875bcced5817165
restart: unless-stopped
deploy:
resources:
Expand Down
6 changes: 3 additions & 3 deletions docker-compose/compose.full.yaml
Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
services:
kafka:
image: docker.io/bitnami/kafka:3.6.1@sha256:b5254050e61d1912ed9cf3f7107adc6a21ff29d85047b46d7b6df57cf25fa2f7
image: docker.io/bitnami/kafka:3.9.0@sha256:3fb376e32af41bab0ad5d891b9749b69b0e500b285e0f3a6fc500affa5f29fb3
restart: unless-stopped
cap_drop:
- ALL
Expand All @@ -25,7 +25,7 @@ services:
- "kafka_data:/bitnami:rw"

kafka-connect:
image: ghcr.io/miracum/util-images/cricketeerone-kafka-connect:v1.6.0@sha256:5d4c79d5b9d64562d8906aec14c66ed5f48ddb0f9e7f12949547ab89b69e3f0f
image: ghcr.io/miracum/util-images/cricketeerone-kafka-connect:v1.6.2@sha256:66fa69028dffe5aabe2323a782aa365fbe45394393f8da53cc283375bc910399
restart: unless-stopped
cap_drop:
- ALL
Expand All @@ -52,7 +52,7 @@ services:
- 8083:8083

akhq:
image: docker.io/tchiotludo/akhq:0.24.0@sha256:6ccf8323ae6e93a893107f857cd9f7210add3569743b2c8528c6567967cc636f
image: docker.io/tchiotludo/akhq:0.25.1@sha256:cfaef8f419c4e4b78c583597d6428b63166e90eeb194af890264d68051a22180
restart: unless-stopped
cap_drop:
- ALL
Expand Down
2 changes: 1 addition & 1 deletion docker-compose/compose.obds-to-fhir.yaml
Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
services:
obds-to-fhir:
image: ghcr.io/bzkf/obds-to-fhir:v2.2.0@sha256:b5d264c849fb5a19d8af1677b6f9adc26d70108c22e4f2753d0b2472da39f038
image: ghcr.io/bzkf/obds-to-fhir:v2.2.3@sha256:fc22d3986e57475f6586da2035c7e8d407bb04b1449b94bee16edd4e0a92e674
restart: unless-stopped
cap_drop:
- ALL
Expand Down
4 changes: 2 additions & 2 deletions docker-compose/compose.pseudonymization.yaml
Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
services:
fhir-gateway:
image: ghcr.io/miracum/fhir-gateway:v3.12.8@sha256:2cf2d887b25594c04af3d6be302f8ccaea12dee90965fe4e2f81d24786ac3b6d
image: ghcr.io/miracum/fhir-gateway:v3.14.2@sha256:4a8d63755d26dbc81b2fc59afd15b7792fc73a23d76501b4a2433a93e8e9d100
restart: unless-stopped
cap_drop:
- ALL
Expand Down Expand Up @@ -32,7 +32,7 @@ services:
SERVICES_KAFKA_GENERATE_OUTPUT_TOPIC_REPLACE_WITH: "fhir.pseudonymized."

fhir-pseudonymizer:
image: ghcr.io/miracum/fhir-pseudonymizer:v2.21.6@sha256:f250919efe324d31d9d442058256d6af58c0ea26980fc5852544a93cf8a71b1d
image: ghcr.io/miracum/fhir-pseudonymizer:v2.22.2@sha256:b4a5aeada149fcc3506070290fd4df76d859fe350912823fcac84d83b8891c50
restart: unless-stopped
cap_drop:
- ALL
Expand Down
4 changes: 2 additions & 2 deletions docker-compose/datashield/compose.datashield.yaml
Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
services:
opal:
image: docker.io/obiba/opal:4.6@sha256:50abaa400d5b474981c951719301ce4f3c9f5058090cc878e5e82b1b35342881
image: docker.io/obiba/opal:4.7@sha256:37acba4b52d91d93fd30bba78fd306d96901b33d214f2ba02048e5f29961008e
restart: unless-stopped
ipc: none
security_opt:
Expand Down Expand Up @@ -32,7 +32,7 @@ services:
- rock-2

opal-db:
image: docker.io/library/postgres:16.2@sha256:4aea012537edfad80f98d870a36e6b90b4c09b27be7f4b4759d72db863baeebb
image: docker.io/library/postgres:16.6@sha256:c7afedc5c15994625b5be4cb4736c030271b55be0360b78a99c90ec2fbe658b6
restart: unless-stopped
ipc: private
security_opt:
Expand Down
4 changes: 2 additions & 2 deletions src/decompose_xmls/compose.yaml
Original file line number Diff line number Diff line change
Expand Up @@ -12,7 +12,7 @@ services:
- ./output-obds-reports:/app/output-obds-reports:rw

kafka:
image: docker.io/bitnami/kafka:3.6.1@sha256:b5254050e61d1912ed9cf3f7107adc6a21ff29d85047b46d7b6df57cf25fa2f7
image: docker.io/bitnami/kafka:3.9.0@sha256:3fb376e32af41bab0ad5d891b9749b69b0e500b285e0f3a6fc500affa5f29fb3
restart: unless-stopped
profiles:
- kafka
Expand All @@ -33,7 +33,7 @@ services:
# KAFKA_CFG_ADVERTISED_LISTENERS: LISTENER_DOCKER_INTERNAL://kafka:19092,LISTENER_DOCKER_EXTERNAL://${DOCKER_HOST_IP:-127.0.0.1}:9092

akhq:
image: docker.io/tchiotludo/akhq:0.24.0@sha256:6ccf8323ae6e93a893107f857cd9f7210add3569743b2c8528c6567967cc636f
image: docker.io/tchiotludo/akhq:0.25.1@sha256:cfaef8f419c4e4b78c583597d6428b63166e90eeb194af890264d68051a22180
restart: unless-stopped
profiles:
- kafka
Expand Down
2 changes: 1 addition & 1 deletion src/decompose_xmls/requirements-test.txt
Original file line number Diff line number Diff line change
@@ -1,3 +1,3 @@
pytest==7.4.4
syrupy==4.6.1
syrupy==4.8.0
pytest-cov==4.1.0
6 changes: 3 additions & 3 deletions src/decompose_xmls/requirements.txt
Original file line number Diff line number Diff line change
@@ -1,3 +1,3 @@
pydantic==1.10.14
confluent-kafka==2.3.0
regex==2024.5.15
pydantic==1.10.19
confluent-kafka==2.7.0
regex==2024.11.6
6 changes: 3 additions & 3 deletions src/obds_fhir_to_opal/plots/requirements.txt
Original file line number Diff line number Diff line change
@@ -1,8 +1,8 @@
ipykernel==6.29.5
ipython==8.26.0
matplotlib==3.9.1
ipython==8.31.0
matplotlib==3.10.0
matplotlib-inline==0.1.7
numpy==1.26.4
pandas==2.2.0
pandas==2.2.3
seaborn==0.13.2

4 changes: 2 additions & 2 deletions src/obds_fhir_to_opal/requirements.txt
Original file line number Diff line number Diff line change
@@ -1,6 +1,6 @@
pathling==6.2.1
pydantic==1.10.14
pydantic==1.10.19
pyspark==3.3.4
pandas==2.2.0
pandas==2.2.3
python-dateutil==2.9.0.post0
xlsxwriter==3.2.0
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