feat: opt-in Loki index store migration from deprecated boltdb-shipper to TSDB

boltdb-shipper is deprecated and will be removed in Loki 4.0.
Setting LOKI_TSDB_FROM_DATE adds a second schema_config period (store:
tsdb) from that date onward, alongside the existing boltdb-shipper
period, so logs before the cutover stay queryable under the old store
while new logs are indexed with TSDB.

.env.sample

@@ -58,6 +58,9 @@ SECRET_BASIC_AUTH_VERSION=v1
 # COMPOSE_FILE="$COMPOSE_FILE:compose.docker-events.yml"
 
 
+# Monitor physical disks health
+# COMPOSE_FILE="$COMPOSE_FILE:compose.smartctl.yml"
+
 # Monitoring Server
 #
 ## Prometheus
@@ -72,12 +75,16 @@ SECRET_BASIC_AUTH_VERSION=v1
 #
 # COMPOSE_FILE="$COMPOSE_FILE:compose.loki.yml"
 #
-# LOKI_LOG_LEVEL=warn
-#
 # Set to 0 to disable retention
 # LOKI_RETENTION_PERIOD=744h
 # LOKI_STORAGE_FILESYSTEM=1
 #
+# Opt in to migrating the deprecated boltdb-shipper index store to TSDB, from this date
+# onward (YYYY-MM-DD). MUST be a FUTURE date, e.g. the day after you deploy this: a past
+# or same-day date makes both stores claim that day's data, breaking queries for it.
+# Logs from before this date are still ingested and queried from boltdb-shipper.
+# LOKI_TSDB_FROM_DATE=2026-11-01
+#
 ## S3 Storage
 # LOKI_STORAGE_S3=1
 # LOKI_AWS_ENDPOINT=https://minio.autonomic.zone
@@ -132,12 +139,3 @@ SECRET_BASIC_AUTH_VERSION=v1
 
 # Node memory usage alert will trigger when memory usage is above the given number in percent
 #ALERT_NODE_MEMORY_USAGE=85
-
-# Loki ingestion alert will trigger when a host ships fewer than the given number of log entries per second
-#ALERT_LOKI_INGESTION_STALLED=0.01
-
-# Loki write error alert will trigger when log pushes fail at more than the given rate per second
-#ALERT_LOKI_WRITE_ERRORS=0
-
-# Loki WAL disk alert will trigger when the filesystem holding the WAL is above the given number in percent. Loki throttles all writes at 90
-#ALERT_LOKI_WAL_DISK_USAGE=85

README.md

@@ -130,6 +130,18 @@ $ echo '{
 $ systemctl restart docker.service
 ```
 
+### Upgrading: Loki TSDB migration
+
+Loki's index store defaults to `boltdb-shipper`, which is deprecated upstream in favour of
+TSDB. To migrate an existing deployment without losing access to already-ingested logs, set
+`LOKI_TSDB_FROM_DATE` in your `.env` (see `.env.sample`) to a date on or after the day after
+your deploy, then `abra app deploy`. Logs from before that date stay on boltdb-shipper and
+remain queryable as before; only logs from that date onward are indexed with TSDB.
+
+**The date must be in the future when you deploy it, never today or earlier**: both stores share the same
+per-day table, so a past or same-day date makes them collide over that day's data and
+breaks querying it.
+
 ### Setup Push Gateway
 
 1. Enable in the env file by uncommenting the following lines:
@@ -174,3 +186,11 @@ It is possible to enable the following alerts, by uncommenting the corresponding
 
 - node disk space: `ALERT_NODE_DISK_SPACE_LEFT`
 - node memory usage: `ALERT_NODE_MEMORY_USAGE`
+
+## smart monitoring
+
+To be able monitor hard drive health data, you need to configure
+`smartd` to run on the host system, and also the
+`collect-smartctl-json.sh` script provided here (via cronjob or as
+a `smartd` hook).  This is a limitation on Docker Swarm, which prevents
+the `smartctl_exporter` from running on privileged mode.

abra.sh

@@ -9,8 +9,7 @@ export LOKI_YML_VERSION=v4
 export PROMETHEUS_YML_VERSION=v2
 export MATRIX_ALERTMANAGER_CONFIG_VERSION=v1
 export MATRIX_ALERTMANAGER_ENTRYPOINT_VERSION=v1
-export GF_ALERTS_NODE_VERSION=v3
-export GF_ALERTS_LOKI_VERSION=v5
+export GF_ALERTS_NODE_VERSION=v4
 export CONFIG_ALLOY_VERSION=v3
 
 # migrates secrets from old names to new names by reading values from the

alerts/loki.yml.tmpl

@@ -1,191 +0,0 @@
-apiVersion: 1
-
-# List of alert rule UIDs that should be deleted
-deleteRules:
-  {{ if not (env "ALERT_LOKI_INGESTION_STALLED") }}
-  - orgId: 1
-    uid: coopcloud_loki_ingestion_stalled
-  {{ end }}
-  {{ if not (env "ALERT_LOKI_WRITE_ERRORS") }}
-  - orgId: 1
-    uid: coopcloud_loki_write_errors
-  {{ end }}
-  {{ if not (env "ALERT_LOKI_WAL_DISK_USAGE") }}
-  - orgId: 1
-    uid: coopcloud_loki_wal_disk_usage
-  {{ end }}
-
-groups:
-- orgId: 1
-  name: loki
-  folder: monitoring
-  interval: 5m
-  rules:
-    {{ if (env "ALERT_LOKI_INGESTION_STALLED") }}
-    - uid: coopcloud_loki_ingestion_stalled
-      title: Loki Ingestion Stalled
-      condition: C
-      data:
-        - refId: A
-          relativeTimeRange:
-            from: 1800
-            to: 0
-          datasourceUid: PBFA97CFB590B2093
-          model:
-            editorMode: code
-            expr: sum by (instance) (rate(loki_write_sent_entries_total[15m]))
-            instant: true
-            intervalMs: 1000
-            legendFormat: __auto
-            maxDataPoints: 43200
-            range: false
-            refId: A
-        - refId: C
-          relativeTimeRange:
-            from: 1800
-            to: 0
-          datasourceUid: __expr__
-          model:
-            conditions:
-                - evaluator:
-                    params:
-                        - {{ env "ALERT_LOKI_INGESTION_STALLED" }}
-                    type: lt
-                  operator:
-                    type: and
-                  query:
-                    params:
-                        - C
-                  reducer:
-                    params: []
-                    type: last
-                  type: query
-            datasource:
-                type: __expr__
-                uid: __expr__
-            expression: A
-            intervalMs: 1000
-            maxDataPoints: 43200
-            refId: C
-            type: threshold
-      noDataState: Alerting
-      execErrState: Error
-      for: 15m
-      annotations:
-        description: ""
-        runbook_url: ""
-        summary: Loki received no logs from {{`{{ $labels.instance }}`}} for 15m ({{`{{ printf "%.4f" (index $values "A").Value }}`}} entries/sec, threshold {{ env "ALERT_LOKI_INGESTION_STALLED" }})
-      isPaused: false
-    {{ end }}
-    {{ if (env "ALERT_LOKI_WRITE_ERRORS") }}
-    - uid: coopcloud_loki_write_errors
-      title: Loki Write Errors
-      condition: C
-      data:
-        - refId: A
-          relativeTimeRange:
-            from: 1200
-            to: 0
-          datasourceUid: PBFA97CFB590B2093
-          model:
-            editorMode: code
-            expr: sum by (instance, status_code) (rate(loki_write_request_duration_seconds_count{status_code!~"2.."}[10m]))
-            instant: true
-            intervalMs: 1000
-            legendFormat: __auto
-            maxDataPoints: 43200
-            range: false
-            refId: A
-        - refId: C
-          relativeTimeRange:
-            from: 1200
-            to: 0
-          datasourceUid: __expr__
-          model:
-            conditions:
-                - evaluator:
-                    params:
-                        - {{ env "ALERT_LOKI_WRITE_ERRORS" }}
-                    type: gt
-                  operator:
-                    type: and
-                  query:
-                    params:
-                        - C
-                  reducer:
-                    params: []
-                    type: last
-                  type: query
-            datasource:
-                type: __expr__
-                uid: __expr__
-            expression: A
-            intervalMs: 1000
-            maxDataPoints: 43200
-            refId: C
-            type: threshold
-      noDataState: NoData
-      execErrState: Error
-      for: 10m
-      annotations:
-        description: ""
-        runbook_url: ""
-        summary: Loki is rejecting log pushes from {{`{{ $labels.instance }}`}} with HTTP {{`{{ $labels.status_code }}`}} ({{`{{ printf "%.2f" (index $values "A").Value }}`}} failed pushes/sec)
-      isPaused: false
-    {{ end }}
-    {{ if (env "ALERT_LOKI_WAL_DISK_USAGE") }}
-    - uid: coopcloud_loki_wal_disk_usage
-      title: Loki WAL Disk Usage
-      condition: C
-      data:
-        - refId: A
-          relativeTimeRange:
-            from: 600
-            to: 0
-          datasourceUid: PBFA97CFB590B2093
-          model:
-            editorMode: code
-            expr: max by (instance) (loki_ingester_wal_disk_usage_percent * 100)
-            instant: true
-            intervalMs: 1000
-            legendFormat: __auto
-            maxDataPoints: 43200
-            range: false
-            refId: A
-        - refId: C
-          relativeTimeRange:
-            from: 600
-            to: 0
-          datasourceUid: __expr__
-          model:
-            conditions:
-                - evaluator:
-                    params:
-                        - {{ env "ALERT_LOKI_WAL_DISK_USAGE" }}
-                    type: gt
-                  operator:
-                    type: and
-                  query:
-                    params:
-                        - C
-                  reducer:
-                    params: []
-                    type: last
-                  type: query
-            datasource:
-                type: __expr__
-                uid: __expr__
-            expression: A
-            intervalMs: 1000
-            maxDataPoints: 43200
-            refId: C
-            type: threshold
-      noDataState: NoData
-      execErrState: Error
-      for: 10m
-      annotations:
-        description: ""
-        runbook_url: ""
-        summary: Loki WAL disk {{`{{ printf "%.1f" (index $values "A").Value }}`}}% full on {{`{{ $labels.instance }}`}} (threshold {{ env "ALERT_LOKI_WAL_DISK_USAGE" }}%, writes stop at 90%)
-      isPaused: false
-    {{ end }}

alerts/node.yml.tmpl

@@ -87,7 +87,7 @@ groups:
           datasourceUid: PBFA97CFB590B2093
           model:
             editorMode: code
-            expr: (node_memory_MemAvailable_bytes / node_memory_MemTotal_bytes) * 100
+            expr: 100 - ((node_memory_MemAvailable_bytes / node_memory_MemTotal_bytes) * 100)
             instant: true
             intervalMs: 1000
             legendFormat: __auto

collect-smartctl-json.service

@@ -0,0 +1,6 @@
+[Unit]
+Description=Collect SMART data
+
+[Service]
+Type=oneshot
+ExecStart=/usr/local/bin/collect-smartctl-json.sh

collect-smartctl-json.sh

@@ -0,0 +1,61 @@
+#! /bin/bash
+# Adapted from https://github.com/prometheus-community/smartctl_exporter/blob/master/collect-smartctl-json.sh
+
+# Data directory to dump smartctl output
+# This directory will be created if it doesn't exist
+data_dir="/var/lib/smartmontools/json"
+
+# The original script used --xall but that doesn't work
+# This matches the command in readSMARTctl()
+smartctl_args="--json --info --health --attributes --tolerance=verypermissive \
+--nocheck=standby --format=brief --log=error"
+
+# Ignore this devices
+smartctl_ignore_dev_regex="^(/dev/bus)"
+
+# Determine the json query tool to use
+if command -v jq >/dev/null; then
+	json_tool="jq"
+	json_args="--raw-output"
+elif command -v yq >/dev/null; then
+	json_tool="yq"
+	json_args="--unwrapScalar"
+else
+	echo -e "One of 'yq' or 'jq' is required. Please try again after \
+installing one of them"
+	exit 1
+fi
+
+if [[ ! "${UID}" -eq 0 ]] && ! command -v sudo >/dev/null; then
+	# Not root and sudo doesn't exist
+	echo "sudo does not exist. Please run this as root"
+	exit 1
+fi
+
+SUDO="sudo"
+if [[ "${UID}" -eq 0 ]]; then
+	# Don't use sudo if root
+	SUDO=""
+fi
+
+[[ ! -d "${data_dir}" ]] && mkdir --parents "${data_dir}"
+
+if [[ $# -ne 0 ]]; then
+	devices="${1}"
+else
+	devices="$(smartctl --scan --json | "${json_tool}" "${json_args}" \
+".devices[].name | select(test(\"${smartctl_ignore_dev_regex}\") | not)")"
+  mapfile -t devices <<< "${devices[@]}"
+fi
+
+for device in "${devices[@]}"
+  do
+	echo -n "Collecting data for '${device}'..."
+	# shellcheck disable=SC2086
+	data="$($SUDO smartctl ${smartctl_args} ${device})"
+	# Accommodate a smartmontools pre-7.3 bug
+	data=${data#"  Pending defect count:"}
+	device_name="$(basename "${device}")"
+	echo -e "\tSaving to ${device_name}.json"
+	echo "${data}" > "${data_dir}/${device_name}.json"
+done

collect-smartctl-json.timer

@@ -0,0 +1,9 @@
+[Unit]
+Description=Collect SMART data
+
+[Timer]
+OnCalendar=hourly
+Persistent=true
+
+[Install]
+WantedBy=timers.target

compose.grafana.yml

@@ -2,7 +2,7 @@ version: '3.8'
 
 services:
   grafana:
-    image: grafana/grafana:13.0.6
+    image: grafana/grafana:13.2.3
     volumes:
       - grafana-data:/var/lib/grafana:rw
     secrets:
@@ -24,8 +24,6 @@ services:
         target: /var/lib/grafana/dashboards/backup.json
       - source: gf_alerts_node
         target: /etc/grafana/provisioning/alerting/node.yml
-      - source: gf_alerts_loki
-        target: /etc/grafana/provisioning/alerting/loki.yml
     networks:
       - proxy
       - internal
@@ -36,9 +34,6 @@ services:
       - GF_INSTALL_PLUGINS
       - ALERT_NODE_DISK_SPACE_LEFT
       - ALERT_NODE_MEMORY_USAGE
-      - ALERT_LOKI_INGESTION_STALLED
-      - ALERT_LOKI_WRITE_ERRORS
-      - ALERT_LOKI_WAL_DISK_USAGE
     deploy:
       labels:
         - "traefik.enable=true"
@@ -82,10 +77,6 @@ configs:
     template_driver: golang
     name: ${STACK_NAME}_gf_alerts_node_${GF_ALERTS_NODE_VERSION}
     file: alerts/node.yml.tmpl
-  gf_alerts_loki:
-    template_driver: golang
-    name: ${STACK_NAME}_gf_alerts_loki_${GF_ALERTS_LOKI_VERSION}
-    file: alerts/loki.yml.tmpl
 
 volumes:
   grafana-data:

compose.loki.yml

@@ -19,16 +19,10 @@ services:
       - LOKI_AWS_REGION
       - LOKI_BUCKET_NAMES
       - LOKI_RETENTION_PERIOD
-      - LOKI_LOG_LEVEL
       - STACK_NAME
       - LOKI_STORAGE_FILESYSTEM
       - LOKI_STORAGE_S3
-    healthcheck:
-      test: ["CMD", "/usr/bin/loki", "-health"]
-      interval: 10s
-      timeout: 10s
-      retries: 10
-      start_period: 30s
+      - LOKI_TSDB_FROM_DATE
     deploy:
       restart_policy:
         condition: on-failure
@@ -41,8 +35,6 @@ services:
         - "traefik.http.routers.${STACK_NAME}-loki.tls=true"
         - "traefik.http.routers.${STACK_NAME}-loki.tls.certresolver=${LETS_ENCRYPT_ENV}"
         - "traefik.http.routers.${STACK_NAME}-loki.middlewares=basicauth@file"
-        - "prometheus.io/scrape=true"
-        - "prometheus.io/port=3100"
 
 
 configs:

compose.prometheus.yml

@@ -2,7 +2,7 @@ version: '3.8'
 
 services:
   prometheus:
-    image: prom/prometheus:v3.12.0
+    image: prom/prometheus:v3.15.0
     secrets:
       - basic_auth
     volumes:

compose.smartctl.yml

@@ -0,0 +1,17 @@
+---
+version: "3.8"
+services:
+  smartctl:
+    image: "prometheuscommunity/smartctl-exporter:v0.15.0"
+    volumes:
+    - "/var/lib/smartmontools/json:/debug"
+    command:
+    - "--smartctl.fake-data"
+    - "--smartctl.interval=1h"
+    networks:
+    - "proxy"
+    deploy:
+      labels:
+        - "prometheus.io/scrape=true"
+        - "prometheus.io/port=9633"
+        - "prometheus.io/path=/metrics"

compose.yml

@@ -3,7 +3,7 @@ version: "3.8"
 
 services:
   app:
-    image: grafana/alloy:v1.18.1
+    image: grafana/alloy:v1.20.1
     hostname: "${DOMAIN}"
     configs:
       - source: config_alloy
@@ -53,7 +53,7 @@ services:
         condition: on-failure
       labels:
         - "backupbot.backup=${ENABLE_BACKUPS:-true}"
-        - "coop-cloud.${STACK_NAME}.version=2.2.0+v1.18.1"
+        - "coop-cloud.${STACK_NAME}.version=2.3.0+v1.20.1"
 configs:
   config_alloy:
     template_driver: golang

loki.yml.tmpl

@@ -15,7 +15,7 @@ ruler:
 
 server:
   http_listen_port: 3100
-  log_level: {{ or (env "LOKI_LOG_LEVEL") "warn" }}
+  log_level: warn
 
 distributor:
   ring:
@@ -56,12 +56,26 @@ schema_config:
       index:
         prefix: index_
         period: 24h
+{{ if env "LOKI_TSDB_FROM_DATE" }}
+    - from: {{ env "LOKI_TSDB_FROM_DATE" }}
+      store: tsdb
+      object_store: filesystem
+      schema: v13
+      index:
+        prefix: index_
+        period: 24h
+{{ end }}
 
 storage_config:
   boltdb_shipper:
     active_index_directory: /loki/boltdb-shipper-active
     cache_location: /loki/boltdb-shipper-cache
     cache_ttl: 24h         # Can be increased for faster performance over longer query periods, uses more disk space
+{{ if env "LOKI_TSDB_FROM_DATE" }}
+  tsdb_shipper:
+    active_index_directory: /loki/tsdb-index
+    cache_location: /loki/tsdb-cache
+{{ end }}
   filesystem:
     directory: /loki/chunks
 {{ end }}
@@ -74,6 +88,15 @@ schema_config:
     index:
       prefix: index_
       period: 24h
+{{ if env "LOKI_TSDB_FROM_DATE" }}
+  - from: {{ env "LOKI_TSDB_FROM_DATE" }}
+    store: tsdb
+    object_store: aws
+    schema: v13
+    index:
+      prefix: index_
+      period: 24h
+{{ end }}
 
 storage_config:
  boltdb_shipper:
@@ -81,6 +104,11 @@ storage_config:
    cache_location: /loki/index_cache
    resync_interval: 5s
    shared_store: aws
+{{ if env "LOKI_TSDB_FROM_DATE" }}
+ tsdb_shipper:
+   active_index_directory: /loki/tsdb-index
+   cache_location: /loki/tsdb-cache
+{{ end }}
 
  aws:
    endpoint: {{ env "LOKI_AWS_ENDPOINT" }}
@@ -99,7 +127,7 @@ storage_config:
 
 
 compactor:
-  working_directory: /loki/boltdb-shipper-compactor
+  working_directory: /loki/compactor
   compaction_interval: 10m
   retention_enabled: true
   retention_delete_delay: 2h
@@ -127,4 +155,4 @@ frontend:
 
 table_manager:
   retention_deletes_enabled: false
-  retention_period: 0s
+  retention_period: 0s

release/next

@@ -0,0 +1 @@
+- opt-in migration of Loki's index store from deprecated boltdb-shipper to TSDB via LOKI_TSDB_FROM_DATE

renovate.json

@@ -0,0 +1,6 @@
+{
+  "$schema": "https://docs.renovatebot.com/renovate-schema.json",
+  "extends": [
+    "config:recommended"
+  ]
+}