tmp
-
task-1fb47da6-ex-00-cmvmv 1/1 Running 0 21d
task-1fb47da6-qfhc6 1/1 Running 0 21d
task-574e8b52-ex-00-jpqn9 1/1 Running 0 7h12m
task-574e8b52-n8hsz 1/1 Running 0 7h12m
task-5c6eabb4-ex-00-lcx7k 1/1 Running 0 4d18h
task-5c6eabb4-nj6bp 1/1 Running 0 4d18h
task-6711bc37-ex-00-bslmm 1/1 Running 0 44h
task-6711bc37-sd7np 1/1 Running 0 44h
task-81781cff-ex-00-lgq6h 1/1 Running 0 6d7h
task-81781cff-x4t2b 1/1 Running 0 6d7h
task-8b2f5573-ex-00-jm84j 1/1 Running 0 2d1h
task-8b2f5573-th9kh 1/1 Running 0 2d1h
task-a6155215-ex-00-8sk97 1/1 Running 0 7h12m
task-a6155215-v25fx 1/1 Running 0 7h12m
task-ad8f070c-6qnd8 1/1 Running 0 6h59m
task-ad8f070c-ex-00-qclgq 1/1 Running 0 6h59m
task-e36e028c-ex-00-smjkc 1/1 Running 0 7h12m
task-e36e028c-sjzrh 1/1 Running 0 7h12m
task-ecebcf26-ex-00-c4tp7 1/1 Running 0 23h
task-ecebcf26-lh8g2 1/1 Running 0 23h
task-fdf6d83c-bpdh5 1/1 Running 0 6h58m
task-fdf6d83c-ex-00-wv4sw 1/1 Running 0 6h58m
task-ff0fb947-ex-00-xmh2x 1/1 Running 0 8d
task-ff0fb947-wwmr5 1/1 Running 0 8d -
delete from "JOB_KEY_VALUE_ENTRY" where "WORKFLOW_EXECUTION_UUID" in('a702263c-b35c-4cb3-9578-1e7662a6fbab','51b0f097-1499-48ad-92b6-22b4941a2a12','bb696d34-46b3-4955-a026-a6ef595d72c1','2ae7ad0e-6e4b-40c5-87db-c78926bde636','df33eb5d-89a3-42aa-8834-1373379570b3','e0dd85fe-20b2-4e1b-8bff-64d603aac471','9c7683a3-b3a6-4dfd-a865-be1065244305','3fbdfe83-f920-4e85-8eab-7137f05bfaac','ad10fc2c-84f0-4e1a-8133-4293c43f10e6','80ed8072-f120-409f-a902-591fad8d4527','7059cd9e-a162-4057-9bf2-da4ff78c1b17','12139c1f-88a2-46a7-b481-b1b5f8d3ada5','2c782a4a-3695-4813-81ef-257e3fcaed63','98237786-26b1-4a9a-a04a-ca793d9ed627','0509289a-20de-42d1-bce3-9f79299e0b73','dcda6e38-42f9-4320-b8f9-1e82c8653160','b8f402ee-8bfb-445c-9a3e-73270a3a024c','93ad742a-0935-4801-a402-4767ddcb0b51','ebaf2a30-3677-4335-a7ac-bc45c9c8fd7b','763c913c-460f-4b81-81dc-2cd2c6f546aa','988ccc33-fb0c-4511-aa5e-01709631b89a','01d61383-555f-4364-8538-03041df8b0d4','938258e2-ba71-4a57-aac8-65decbe9bd23','e1706ca4-6465-45e1-ac81-86fc027daa7a','2a5fbb76-c670-42e8-a387-5d5e50fc441a','cfcaed76-9606-4b2c-a4ed-49306cdc00eb','0ec71cc8-3bb7-4f97-a8d8-7020354b868d','b633525f-92b6-4a44-8f89-c1028472ba01','0982660c-3c85-4f65-b932-53afd2d1d3ec','e886a129-e5fd-4ed5-b250-fb3225ad6d97','495e6f05-657f-4914-841a-21470c3764b5','87f364f0-f530-4090-82d8-5c255891ded8','925d410b-cdc1-46b4-9147-b0f9f70e9a59','3427acec-c025-4336-89f1-50e7bbac85c5','cd93456f-fd82-4b77-8620-6c7b32539d22','1ac5b073-5e5c-4729-b85f-efaaffaff176','61738333-8338-4dcc-81ef-3562d8dbbdfc','55e64230-d41d-4a9d-a76f-fcad210f84ad','98df7432-9919-4edf-8b2c-b3824af974fa','b7e0f25d-dfa3-4468-b999-7fbba9f46307','dbbaac75-d6dc-4f06-986b-79da9c4980e4','21d071c2-aed5-477d-a686-f4b074a2a79f','ada75705-ef9d-4062-afed-d92ebe360f66','63f2d5f2-a1de-486a-82a9-18f82ad52d18','10bcd55a-417e-4fc5-aa1f-53e645285796','2f6a01a8-73b3-4494-acfd-a351cea1c509','8fd0db25-cdf5-4c7e-ab0b-6379f72f5acf','4264a627-4934-4941-9b4b-dbe344d7852b','8b6d385d-ebfb-4185-8cb7-2ee1c928db52','b3f38946-266f-4bd6-af53-459b8a810d42','59a7d759-7ed2-4cb6-b3b5-2b76c24d6c5e','0dc2646e-6daf-4aac-8703-5ddd1c33bbe4','106edfac-59dd-4a17-9371-8bf9dd200a87','caa307be-62dd-4a76-906b-63882501b18a','bfb2b8f0-ead4-4c1e-8546-803104ea4e0e','fa84175e-dd42-44b5-a081-bdb6df5210a6','f98f43c4-8e87-460a-b61a-7a1e5bf952bf','d9752caa-84c4-4372-9628-b3e36642ee75','e4b14277-517e-4ae3-8bd0-1b63d948c8f9','70a6dfc2-532a-41d8-aa7d-cc6d08d45f6c','cbe839d1-e5a3-4822-a779-8aa22d141a95','0adfe852-69d1-4759-95c6-a04b8924280e','bc55ac0e-6fc9-4e12-8ff7-67fc3c9c3e0e','b044e175-3387-4081-846e-e05a5a86061d','97c24dd6-ee85-46f2-919c-ba864216c6ba','b945761b-6f9d-4a3f-a206-6077167f5bf0','9f60ce8d-f02c-4157-a387-c2a4fe1d8b36','6e9310e5-5b87-4a20-a432-10335a7fa07b','9bc053e8-77ce-4469-9658-fb8c687cd5f4','a62fe775-5100-43e2-b129-e14de3859d8d','3b77fbd1-52c7-46ca-965a-3f2ea599c8c3','be1fbb89-f6ed-43b0-be41-70ef3fc5579c','dc2e0f09-791b-480c-8ba8-b7271234b06d','55c589f9-9ba7-4f81-89e5-2b50bc9ee71a','fececc27-b31d-4727-b994-d35588dc5a34','d6b8b3c4-8d13-4c1c-ad2d-754e7496e97f','72aa9d68-c464-42ed-8c9b-52469d399a6a','b40754c4-5274-4285-a132-12368d1ae77a','711ed4e5-89a1-4e1e-ab03-ad9f2690b6d6','9f57fc38-1b1a-44b8-8c5a-c7491f005e9e','e289252e-29bd-484c-b910-dea8ae5f257b','a4d88847-7dd1-49d9-8589-72966688e5d8','ed23ddfd-def7-495e-882c-6c488776feec','7ea78ce3-996f-408c-8431-b5a2f7626591','521a24d4-dfef-4c68-9ddb-e5b9fad54673','80b2cc76-b9f5-44e9-bfd1-86df0441eac3','b0636c4c-abc7-46dc-a13a-04caf3292549','15cd6448-b417-49d0-83ee-c229c293e11a','4b21ed94-ad4e-477b-bfa4-81c792de11ea','df041d37-217c-4aff-9e37-6f404c9f7795','72f799ff-2fd9-47e6-99ca-6c8a24ac6c8a','306e912d-8c38-4c48-8e32-ce98d324951d','2b8e3c8d-22dc-4d3a-9b05-4757f383624a','035d76b7-69f7-48f0-83e6-f40f33e24a46','c9f7f2dd-433d-44b0-a551-0b23562a7792','cbd712e0-1861-4c15-b5d5-1bd793b5c5c3','dfaacb27-0b44-44c3-9664-108cdc11a076','14606e5c-9399-4c8a-9908-3898a9caca73','add7f4d1-2cb7-463a-bd4a-3dee1fb7dac6','f8f8eb9c-077a-440d-922d-82ae0ff8109d','920fdb9a-816e-4fcf-bed2-14b5ba333d7a','a4caf18d-1795-4093-aeae-2468a325f771','f44a01dc-ac87-4a51-9598-91873643a3c0') ;
-
[INFO] [12/01/2025 07:33:25.037] [cromwell-system-akka.dispatchers.backend-dispatcher-9548] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-366647aa-46c6-43c2-af7c-3ca2b7aef64b/WorkflowExecutionActor-366647aa-46c6-43c2-af7c-3ca2b7aef64b/366647aa-46c6-43c2-af7c-3ca2b7aef64b-EngineJobExecutionActor-meta_workflow.classbar:NA:1/366647aa-46c6-43c2-af7c-3ca2b7aef64b-BackendJobExecutionActor-meta_workflow.classbar:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(366647aa)meta_workflow.classbar:NA:1]: Job task-ac5a14a7 is complete
[INFO] [12/01/2025 07:33:25.037] [cromwell-system-akka.dispatchers.backend-dispatcher-9526] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-366647aa-46c6-43c2-af7c-3ca2b7aef64b/WorkflowExecutionActor-366647aa-46c6-43c2-af7c-3ca2b7aef64b/366647aa-46c6-43c2-af7c-3ca2b7aef64b-EngineJobExecutionActor-meta_workflow.classbar:NA:1/366647aa-46c6-43c2-af7c-3ca2b7aef64b-BackendJobExecutionActor-meta_workflow.classbar:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(366647aa)meta_workflow.classbar:NA:1]: Status change from Running to Complete -
http://192.168.30.202:30090/ga4gh/tes/v1/tasks/task-bc29b16b
{
"id" : "task-bc29b16b",
"state" : "COMPLETE"
} -
import requests
import jsondef check_task_status(api_url: str) -> None:
"""
调用指定API接口，判断任务状态是否为COMPLETE
:param api_url: 任务状态查询接口URL
"""
try:
# 发送GET请求（添加超时防止无限等待）
response = requests.get(api_url, timeout=10)# 检查HTTP响应状态码（200表示请求成功） response.raise_for_status() # 解析JSON响应 task_data = response.json() # 提取state字段并判断 task_state = task_data.get("state", "") # 无state字段时返回空字符串 if task_state == "COMPLETE": print(f"✅ 任务状态为: {task_state} - 任务已完成！") else: print(f"❌ 任务状态为: {task_state} - 未完成（目标状态：COMPLETE）") except requests.exceptions.ConnectionError: print("❌ 错误：无法连接到接口，请检查URL或网络连接") except requests.exceptions.Timeout: print("❌ 错误：接口请求超时") except requests.exceptions.HTTPError as e: print(f"❌ 错误：HTTP请求失败（状态码：{e.response.status_code}）") except json.JSONDecodeError: print("❌ 错误：接口返回数据不是合法JSON格式") except Exception as e: print(f"❌ 未知错误：{str(e)}")if name == "main":
# 目标API接口URL
TASK_API_URL = "http://192.168.30.202:30090/ga4gh/tes/v1/tasks/task-bc29b16b"
# 执行状态检查
check_task_status(TASK_API_URL)import time
if name == "main":
TASK_API_URL = "http://192.168.30.202:30090/ga4gh/tes/v1/tasks/task-bc29b16b"
while True:
check_task_status(TASK_API_URL)
if "COMPLETE" in open("运行日志.txt", "r").read(): # 或直接在函数内判断后退出
break
time.sleep(10) # 每隔10秒查询一次 -
task-ffe29857 1/1 10s 20d
task-ffe29857-ex-00 1/1 4s 20d
task-ffe41a1d 1/1 101s 21h
task-ffe41a1d-ex-00 1/1 91s 21h
task-ffe44ef0 1/1 2m37s 13d
task-ffe44ef0-ex-00 1/1 2m24s 13d
task-ffe507eb 1/1 74s 5d6h
task-ffe507eb-ex-00 1/1 68s 5d6h
task-ffe54b1c 1/1 101s 4d10h
task-ffe54b1c-ex-00 1/1 88s 4d10h
task-ffea0d86 1/1 28s 11d
task-ffea0d86-ex-00 1/1 23s 11d -
#!/bin/bash
set -euo pipefail定义常量
保留的Job名称（仅示例，脚本会自动匹配成对的Job）
TARGET_PREFIX="task-"
超过7天（转换为秒，7243600=604800秒）
EXPIRE_SECONDS=$((1243600))
当前时间戳（秒）
NOW_TIMESTAMP=$(date +%s)
临时文件存储符合条件的Job列表
TMP_JOB_LIST=$(mktemp)
第一步：获取所有符合命名规则的Completed Job，筛选出超过7天的
echo "===== 开始筛选超过7天且完成的Job ====="
kubectl get jobs --no-headers -o custom-columns="NAME:.metadata.name,COMPLETION_TIME:.status.completionTime,SUCCEEDED:.status.succeeded" |
grep "^${TARGET_PREFIX}" |
while read -r name completion_time succeeded; do
# 跳过未完成的Job（succeeded != 1）
if [ "${succeeded}" != "1" ]; then
continue
fi# 将completionTime转换为时间戳（处理K8s的时间格式，如 2025-11-25T02:21:10Z） if ! comp_timestamp=$(date -d "${completion_time}" +%s 2>/dev/null); then echo "警告：无法解析Job ${name}的完成时间 ${completion_time}，跳过" continue fi # 计算已过去的秒数 elapsed_seconds=$((NOW_TIMESTAMP - comp_timestamp)) # 筛选超过7天的Job if [ ${elapsed_seconds} -gt ${EXPIRE_SECONDS} ]; then echo "${name}" >> "${TMP_JOB_LIST}" echo "符合条件：${name}（完成时间：${completion_time}，已过去：${elapsed_seconds}秒）" fidone
第二步：匹配成对的Job（如 task-ffe54b1c 和 task-ffe54b1c-ex-00），并删除
echo -e "\n===== 开始匹配成对Job并删除 ====="
读取临时文件中的Job列表，按前缀分组
sort "${TMP_JOB_LIST}" | while read -r job_name; do
# 提取核心标识（如从 task-ffe54b1c-ex-00 提取 task-ffe54b1c）
core_id=""
if [[ "${job_name}" =~ ^(${TARGET_PREFIX}[a-f0-9]+)-ex-00$ ]]; then
# 匹配后缀为 -ex-00 的Job，提取核心ID
core_id="${BASH_REMATCH[1]}"
elif [[ "${job_name}" =~ ^${TARGET_PREFIX}[a-f0-9]+$ ]]; then
# 匹配主Job，作为核心ID
core_id="${job_name}"
else
# 不符合命名规则，跳过
continue
fi# 检查成对的两个Job是否都存在于临时列表中 main_job="${core_id}" ex_job="${core_id}-ex-00" if grep -q "^${main_job}$" "${TMP_JOB_LIST}" && grep -q "^${ex_job}$" "${TMP_JOB_LIST}"; then # 避免重复删除（删除后从临时文件中移除） if ! grep -q "^${main_job}-DELETED$" "${TMP_JOB_LIST}"; then echo "删除成对Job：${main_job} 和 ${ex_job}" # 执行删除（可先注释kubectl delete，用echo测试） kubectl delete job "${main_job}" "${ex_job}" # 标记为已删除，避免重复处理 echo "${main_job}-DELETED" >> "${TMP_JOB_LIST}" fi fidone
清理临时文件
rm -f "${TMP_JOB_LIST}"
echo -e "\n===== 清理完成 ====="
-
kubectl delete job task-00160b42
kubectl delete job task-00160b42-ex-00
kubectl delete job task-02fec302
kubectl delete job task-02fec302-ex-00
kubectl delete job task-151cfb1c
kubectl delete job task-151cfb1c-ex-00
kubectl delete job task-188ef6c4
kubectl delete job task-188ef6c4-ex-00
kubectl delete job task-1e22e411
kubectl delete job task-1e22e411-ex-00
kubectl delete job task-20c75c89
kubectl delete job task-20c75c89-ex-00
kubectl delete job task-220bda65
kubectl delete job task-220bda65-ex-00
kubectl delete job task-32db75e1
kubectl delete job task-32db75e1-ex-00
kubectl delete job task-33c0b837
kubectl delete job task-43a99b9a
kubectl delete job task-43a99b9a-ex-00
kubectl delete job task-44aaad8d
kubectl delete job task-44aaad8d-ex-00
kubectl delete job task-4507b81b
kubectl delete job task-4507b81b-ex-00
kubectl delete job task-4ee2fe80
kubectl delete job task-4ee2fe80-ex-00
kubectl delete job task-54f83094
kubectl delete job task-54f83094-ex-00
kubectl delete job task-560205b1
kubectl delete job task-560205b1-ex-00
kubectl delete job task-692bec8a
kubectl delete job task-692bec8a-ex-00
kubectl delete job task-75666b17
kubectl delete job task-75666b17-ex-00
kubectl delete job task-76664940
kubectl delete job task-76664940-ex-00
kubectl delete job task-7974c4cd
kubectl delete job task-7974c4cd-ex-00
kubectl delete job task-7fdfea77
kubectl delete job task-7fdfea77-ex-00
kubectl delete job task-818f1261
kubectl delete job task-818f1261-ex-00
kubectl delete job task-87f89502
kubectl delete job task-87f89502-ex-00
kubectl delete job task-90f2da2c
kubectl delete job task-90f2da2c-ex-00
kubectl delete job task-9d096686
kubectl delete job task-9d096686-ex-00
kubectl delete job task-a7177086
kubectl delete job task-a7177086-ex-00
kubectl delete job task-acc6d856
kubectl delete job task-acc6d856-ex-00
kubectl delete job task-b57e8cbf
kubectl delete job task-b57e8cbf-ex-00
kubectl delete job task-be25389b
kubectl delete job task-be25389b-ex-00
kubectl delete job task-c1c62c24
kubectl delete job task-c1c62c24-ex-00
kubectl delete job task-c64f0b3f
kubectl delete job task-c64f0b3f-ex-00
kubectl delete job task-c64f0b3f
kubectl delete job task-c64f0b3f-ex-00
kubectl delete job task-fe31ccd6
kubectl delete job task-fe31ccd6-ex-00
kubectl delete job task-d0e5ad40
kubectl delete job task-d0e5ad40-ex-00
kubectl delete job task-e9e5a90e
kubectl delete job task-e9e5a90e-ex-00
kubectl delete job task-03e492bb
kubectl delete job task-07508c54
kubectl delete job task-077b4e0a
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kubectl delete job task-41c406d9
kubectl delete job task-423e2827
kubectl delete job task-45346a18
kubectl delete job task-46725da3
kubectl delete job task-468aa833
kubectl delete job task-472d9cbf
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kubectl delete job task-571aaf94
kubectl delete job task-571bdbe2
kubectl delete job task-57950661
kubectl delete job task-57d9f5ca
kubectl delete job task-5b8bcf07
kubectl delete job task-5f4e799a
kubectl delete job task-68383b65
kubectl delete job task-6a3de99e
kubectl delete job task-6d047488
kubectl delete job task-6da3c25b
kubectl delete job task-6dd8faa6
kubectl delete job task-7156b789
kubectl delete job task-7214b10b
kubectl delete job task-72ba3f8d
kubectl delete job task-76e39fd4
kubectl delete job task-76fb2c78
kubectl delete job task-7877306d
kubectl delete job task-792d60c4
kubectl delete job task-7eae628a
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kubectl delete job task-90dc4f05
kubectl delete job task-930cea43
kubectl delete job task-9532cdf3
kubectl delete job task-95e2ea38
kubectl delete job task-a336f510
kubectl delete job task-a934a8e0
kubectl delete job task-ac8b8e39
kubectl delete job task-b12b1d17
kubectl delete job task-b3bc0425
kubectl delete job task-b5007593
kubectl delete job task-b5e8d1ca
kubectl delete job task-b5e8d1ca-ex-00
kubectl delete job task-b640d4e9
kubectl delete job task-b7f14ec9
kubectl delete job task-b86ed9be
kubectl delete job task-bb3c50e1
kubectl delete job task-bb9f9402
kubectl delete job task-bd2681da
kubectl delete job task-c35c5f7a
kubectl delete job task-c58f993b
kubectl delete job task-c833f780
kubectl delete job task-c83b4fda
kubectl delete job task-c8df7262
kubectl delete job task-c8f3fced
kubectl delete job task-c927bd3e
kubectl delete job task-caf7815a
kubectl delete job task-cbc04501
kubectl delete job task-ccc023b9
kubectl delete job task-d150ef6f
kubectl delete job task-d36665f7
kubectl delete job task-d455a2f4
kubectl delete job task-d4d5e409
kubectl delete job task-da04dc0d
kubectl delete job task-dcce4ecf
kubectl delete job task-dd3b1ba4
kubectl delete job task-df6d5230
kubectl delete job task-e441f7b9
kubectl delete job task-e70a4cd6
kubectl delete job task-e88fca64
kubectl delete job task-e968c11c
kubectl delete job task-ec061560
kubectl delete job task-ec47dc5f
kubectl delete job task-eee5ff5a
kubectl delete job task-ef9f195f
kubectl delete job task-f5cd2e6e
kubectl delete job task-fb8836da
kubectl delete job task-fdaeb6eb
kubectl delete job task-fe94a44b
kubectl delete job task-ffd556e2 -
[INFO] [12/18/2025 06:45:43.162] [cromwell-system-akka.dispatchers.api-dispatcher-139] [akka://cromwell-system/user/cromwell-service/WorkflowStoreActor/WorkflowStoreSubmitActor] Unspecified type (Unspecified version) workflow 5b890685-2085-4e03-8465-c317b1e1f23d submitted
[INFO] [12/18/2025 06:47:53.027] [cromwell-system-akka.dispatchers.engine-dispatcher-57] [akka://cromwell-system/user/cromwell-service/WorkflowStoreActor/WorkflowStoreEngineActor] 1 new workflows fetched by cromid-d6f0ebc: 5b890685-2085-4e03-8465-c317b1e1f23d
[INFO] [12/18/2025 06:47:53.027] [cromwell-system-akka.dispatchers.engine-dispatcher-57] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor] WorkflowManagerActor: Starting workflow UUID(5b890685-2085-4e03-8465-c317b1e1f23d)
[INFO] [12/18/2025 06:47:53.027] [cromwell-system-akka.dispatchers.engine-dispatcher-57] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor] WorkflowManagerActor: Successfully started WorkflowActor-5b890685-2085-4e03-8465-c317b1e1f23d
[INFO] [12/18/2025 06:47:53.029] [cromwell-system-akka.dispatchers.engine-dispatcher-55] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-5b890685-2085-4e03-8465-c317b1e1f23d/MaterializeWorkflowDescriptorActor] MaterializeWorkflowDescriptorActor [UUID(5b890685)]: Parsing workflow as WDL draft-2
[INFO] [12/18/2025 06:47:53.031] [cromwell-system-akka.dispatchers.engine-dispatcher-55] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-5b890685-2085-4e03-8465-c317b1e1f23d/MaterializeWorkflowDescriptorActor] MaterializeWorkflowDescriptorActor [UUID(5b890685)]: Call-to-Backend assignments: msConvert.extractTICdata -> TESK
[INFO] [12/18/2025 06:47:55.101] [cromwell-system-akka.dispatchers.engine-dispatcher-82] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-5b890685-2085-4e03-8465-c317b1e1f23d/WorkflowExecutionActor-5b890685-2085-4e03-8465-c317b1e1f23d] WorkflowExecutionActor-5b890685-2085-4e03-8465-c317b1e1f23d [UUID(5b890685)]: Starting msConvert.extractTICdata
[WARN] [12/18/2025 06:48:04.714] [cromwell-system-akka.dispatchers.engine-dispatcher-55] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-5b890685-2085-4e03-8465-c317b1e1f23d/WorkflowExecutionActor-5b890685-2085-4e03-8465-c317b1e1f23d/5b890685-2085-4e03-8465-c317b1e1f23d-EngineJobExecutionActor-msConvert.extractTICdata:NA:1/BackendPreparationActor_for_5b890685:msConvert.extractTICdata
1] BackendPreparationActor_for_5b890685:msConvert.extractTICdata1 [UUID(5b890685)]: Docker lookup failed
[INFO] [12/18/2025 06:48:05.087] [cromwell-system-akka.dispatchers.backend-dispatcher-1210] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-5b890685-2085-4e03-8465-c317b1e1f23d/WorkflowExecutionActor-5b890685-2085-4e03-8465-c317b1e1f23d/5b890685-2085-4e03-8465-c317b1e1f23d-EngineJobExecutionActor-msConvert.extractTICdata:NA:1/5b890685-2085-4e03-8465-c317b1e1f23d-BackendJobExecutionActor-msConvert.extractTICdata:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(5b890685)msConvert.extractTICdata:NA:1]:echo "192.168.30.202:23099/target_meta/target_meta_dev:v3.3.7"
[INFO] [12/18/2025 06:48:05.087] [cromwell-system-akka.dispatchers.backend-dispatcher-1210] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-5b890685-2085-4e03-8465-c317b1e1f23d/WorkflowExecutionActor-5b890685-2085-4e03-8465-c317b1e1f23d/5b890685-2085-4e03-8465-c317b1e1f23d-EngineJobExecutionActor-msConvert.extractTICdata:NA:1/5b890685-2085-4e03-8465-c317b1e1f23d-BackendJobExecutionActor-msConvert.extractTICdata:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(5b890685)msConvert.extractTICdata:NA:1]: Calculated TES outputs (found 4):
Output(Some(rc),Some(msConvert.extractTICdata.rc),Some(/cephfs_data/genostack_v3/genostack_cromwell/cromwell-executions/msConvert/5b890685-2085-4e03-8465-c317b1e1f23d/call-extractTICdata/execution/rc),/cephfs_data/genostack_v3/genostack_cromwell/cromwell-executions/msConvert/5b890685-2085-4e03-8465-c317b1e1f23d/call-extractTICdata/execution/rc,Some(FILE))
Output(Some(stdout),Some(msConvert.extractTICdata.stdout),Some(/cephfs_data/genostack_v3/genostack_cromwell/cromwell-executions/msConvert/5b890685-2085-4e03-8465-c317b1e1f23d/call-extractTICdata/execution/stdout),/cephfs_data/genostack_v3/genostack_cromwell/cromwell-executions/msConvert/5b890685-2085-4e03-8465-c317b1e1f23d/call-extractTICdata/execution/stdout,Some(FILE))
Output(Some(stderr),Some(msConvert.extractTICdata.stderr),Some(/cephfs_data/genostack_v3/genostack_cromwell/cromwell-executions/msConvert/5b890685-2085-4e03-8465-c317b1e1f23d/call-extractTICdata/execution/stderr),/cephfs_data/genostack_v3/genostack_cromwell/cromwell-executions/msConvert/5b890685-2085-4e03-8465-c317b1e1f23d/call-extractTICdata/execution/stderr,Some(FILE))
Output(Some(commandScript),Some(msConvert.extractTICdata.commandScript),Some(/cephfs_data/genostack_v3/genostack_cromwell/cromwell-executions/msConvert/5b890685-2085-4e03-8465-c317b1e1f23d/call-extractTICdata/execution/script),/cephfs_data/genostack_v3/genostack_cromwell/cromwell-executions/msConvert/5b890685-2085-4e03-8465-c317b1e1f23d/call-extractTICdata/execution/script,Some(FILE))
[INFO] [12/18/2025 06:48:05.087] [cromwell-system-akka.dispatchers.backend-dispatcher-1210] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-5b890685-2085-4e03-8465-c317b1e1f23d/WorkflowExecutionActor-5b890685-2085-4e03-8465-c317b1e1f23d/5b890685-2085-4e03-8465-c317b1e1f23d-EngineJobExecutionActor-msConvert.extractTICdata:NA:1/5b890685-2085-4e03-8465-c317b1e1f23d-BackendJobExecutionActor-msConvert.extractTICdata:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(5b890685)msConvert.extractTICdata:NA:1]: Calculated TES inputs (found 1):
cromwell.backend.impl.tes.Input(Some(commandScript),Some(msConvert.extractTICdata.commandScript),Some(/cephfs_data/genostack_v3/genostack_cromwell/cromwell-executions/msConvert/5b890685-2085-4e03-8465-c317b1e1f23d/call-extractTICdata/execution/script),/cephfs_data/genostack_v3/genostack_cromwell/cromwell-executions/msConvert/5b890685-2085-4e03-8465-c317b1e1f23d/call-extractTICdata/execution/script,Some(FILE),None)
[INFO] [12/18/2025 06:48:05.087] [cromwell-system-akka.dispatchers.backend-dispatcher-1210] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-5b890685-2085-4e03-8465-c317b1e1f23d/WorkflowExecutionActor-5b890685-2085-4e03-8465-c317b1e1f23d/5b890685-2085-4e03-8465-c317b1e1f23d-EngineJobExecutionActor-msConvert.extractTICdata:NA:1/5b890685-2085-4e03-8465-c317b1e1f23d-BackendJobExecutionActor-msConvert.extractTICdata:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(5b890685)msConvert.extractTICdata:NA:1]:echo "192.168.30.202:23099/target_meta/target_meta_dev:v3.3.7"
[INFO] [12/18/2025 06:48:09.544] [cromwell-system-akka.dispatchers.backend-dispatcher-1175] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-5b890685-2085-4e03-8465-c317b1e1f23d/WorkflowExecutionActor-5b890685-2085-4e03-8465-c317b1e1f23d/5b890685-2085-4e03-8465-c317b1e1f23d-EngineJobExecutionActor-msConvert.extractTICdata:NA:1/5b890685-2085-4e03-8465-c317b1e1f23d-BackendJobExecutionActor-msConvert.extractTICdata:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(5b890685)msConvert.extractTICdata:NA:1]: job id: task-3c5d0482
[INFO] [12/18/2025 06:48:09.681] [cromwell-system-akka.dispatchers.backend-dispatcher-1138] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-5b890685-2085-4e03-8465-c317b1e1f23d/WorkflowExecutionActor-5b890685-2085-4e03-8465-c317b1e1f23d/5b890685-2085-4e03-8465-c317b1e1f23d-EngineJobExecutionActor-msConvert.extractTICdata:NA:1/5b890685-2085-4e03-8465-c317b1e1f23d-BackendJobExecutionActor-msConvert.extractTICdata:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(5b890685)msConvert.extractTICdata:NA:1]: Status change from - to Running
[INFO] [12/18/2025 06:52:14.785] [cromwell-system-akka.dispatchers.backend-dispatcher-984] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-5b890685-2085-4e03-8465-c317b1e1f23d/WorkflowExecutionActor-5b890685-2085-4e03-8465-c317b1e1f23d/5b890685-2085-4e03-8465-c317b1e1f23d-EngineJobExecutionActor-msConvert.extractTICdata:NA:1/5b890685-2085-4e03-8465-c317b1e1f23d-BackendJobExecutionActor-msConvert.extractTICdata:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(5b890685)msConvert.extractTICdata:NA:1]: Job task-3c5d0482 is complete
[INFO] [12/18/2025 06:52:14.785] [cromwell-system-akka.dispatchers.backend-dispatcher-1141] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-5b890685-2085-4e03-8465-c317b1e1f23d/WorkflowExecutionActor-5b890685-2085-4e03-8465-c317b1e1f23d/5b890685-2085-4e03-8465-c317b1e1f23d-EngineJobExecutionActor-msConvert.extractTICdata:NA:1/5b890685-2085-4e03-8465-c317b1e1f23d-BackendJobExecutionActor-msConvert.extractTICdata:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(5b890685)msConvert.extractTICdata:NA:1]: Status change from Running to Complete
[INFO] [12/18/2025 06:52:16.222] [cromwell-system-akka.dispatchers.engine-dispatcher-112] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-5b890685-2085-4e03-8465-c317b1e1f23d/WorkflowExecutionActor-5b890685-2085-4e03-8465-c317b1e1f23d] WorkflowExecutionActor-5b890685-2085-4e03-8465-c317b1e1f23d [UUID(5b890685)]: Workflow msConvert complete. Final Outputs:
[INFO] [12/18/2025 06:52:19.549] [cromwell-system-akka.dispatchers.engine-dispatcher-81] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor] WorkflowManagerActor: Workflow actor for 5b890685-2085-4e03-8465-c317b1e1f23d completed with status 'Succeeded'. The workflow will be removed from the workflow store. -
[INFO] [12/18/2025 07:05:32.113] [cromwell-system-akka.dispatchers.backend-dispatcher-1244] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-9c9d7421-4218-4a3f-9f46-87faa5edc47e/WorkflowExecutionActor-9c9d7421-4218-4a3f-9f46-87faa5edc47e/9c9d7421-4218-4a3f-9f46-87faa5edc47e-EngineJobExecutionActor-monoMeth.jsonFile:NA:1/9c9d7421-4218-4a3f-9f46-87faa5edc47e-BackendJobExecutionActor-monoMeth.jsonFile:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(9c9d7421)monoMeth.jsonFile:NA:1]: Job task-9a3b0fd9 is complete
[INFO] [12/18/2025 07:05:32.113] [cromwell-system-akka.dispatchers.backend-dispatcher-1255] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-9c9d7421-4218-4a3f-9f46-87faa5edc47e/WorkflowExecutionActor-9c9d7421-4218-4a3f-9f46-87faa5edc47e/9c9d7421-4218-4a3f-9f46-87faa5edc47e-EngineJobExecutionActor-monoMeth.jsonFile:NA:1/9c9d7421-4218-4a3f-9f46-87faa5edc47e-BackendJobExecutionActor-monoMeth.jsonFile:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(9c9d7421)monoMeth.jsonFile:NA:1]: Status change from Running to Complete -
[INFO] [12/18/2025 07:26:16.905] [cromwell-system-akka.dispatchers.api-dispatcher-1503] [akka://cromwell-system/user/cromwell-service/WorkflowStoreActor/WorkflowStoreSubmitActor] Unspecified type (Unspecified version) workflow b3c8ad44-dc3b-4e87-9fe9-97c0db47031b submitted
[INFO] [12/18/2025 07:26:31.291] [cromwell-system-akka.dispatchers.engine-dispatcher-68] [akka://cromwell-system/user/cromwell-service/WorkflowStoreActor/WorkflowStoreEngineActor] 1 new workflows fetched by cromid-247fb6c: b3c8ad44-dc3b-4e87-9fe9-97c0db47031b
[INFO] [12/18/2025 07:26:31.291] [cromwell-system-akka.dispatchers.engine-dispatcher-68] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor] WorkflowManagerActor: Starting workflow UUID(b3c8ad44-dc3b-4e87-9fe9-97c0db47031b)
[INFO] [12/18/2025 07:26:31.291] [cromwell-system-akka.dispatchers.engine-dispatcher-68] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor] WorkflowManagerActor: Successfully started WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b
[INFO] [12/18/2025 07:26:31.291] [cromwell-system-akka.dispatchers.engine-dispatcher-68] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor] Retrieved 1 workflows from the WorkflowStoreActor
[INFO] [12/18/2025 07:26:31.293] [cromwell-system-akka.dispatchers.engine-dispatcher-74] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/MaterializeWorkflowDescriptorActor] MaterializeWorkflowDescriptorActor [UUID(b3c8ad44)]: Parsing workflow as WDL draft-2
[INFO] [12/18/2025 07:26:31.298] [cromwell-system-akka.dispatchers.engine-dispatcher-74] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/MaterializeWorkflowDescriptorActor] MaterializeWorkflowDescriptorActor [UUID(b3c8ad44)]: Call-to-Backend assignments: meta_workflow.Identify_analy -> TESK
[INFO] [12/18/2025 07:26:33.508] [cromwell-system-akka.dispatchers.engine-dispatcher-74] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b] WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b [UUID(b3c8ad44)]: Starting meta_workflow.Identify_analy
[INFO] [12/18/2025 07:26:41.267] [cromwell-system-akka.dispatchers.engine-dispatcher-55] [akka://cromwell-system/user/cromwell-service/JobExecutionTokenDispenser] Assigned new job execution tokens to the following groups: b3c8ad44: 1
[WARN] [12/18/2025 07:26:41.289] [cromwell-system-akka.dispatchers.engine-dispatcher-66] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-EngineJobExecutionActor-meta_workflow.Identify_analy:NA:1/BackendPreparationActor_for_b3c8ad44:meta_workflow.Identify_analy1] BackendPreparationActor_for_b3c8ad44:meta_workflow.Identify_analy1 [UUID(b3c8ad44)]: Docker lookup failed
java.lang.Exception: Failed to get docker hash for dockerhub.genostack.com:8090/library/ubuntu:18.04 Error running: docker images --digests --format {{printf "%s\t%s\t%s" .Repository .Tag .Digest}}
Exit code: 1
Cannot connect to the Docker daemon at unix:///var/run/docker.sock. Is the docker daemon running?at cromwell.engine.workflow.WorkflowDockerLookupActor.cromwell$engine$workflow$WorkflowDockerLookupActor$$handleLookupFailure(WorkflowDockerLookupActor.scala:279) at cromwell.engine.workflow.WorkflowDockerLookupActor$$anonfun$3.applyOrElse(WorkflowDockerLookupActor.scala:93) at cromwell.engine.workflow.WorkflowDockerLookupActor$$anonfun$3.applyOrElse(WorkflowDockerLookupActor.scala:78) at scala.runtime.AbstractPartialFunction.apply(AbstractPartialFunction.scala:35) at akka.actor.FSM.processEvent(FSM.scala:707) at akka.actor.FSM.processEvent$(FSM.scala:704) at cromwell.engine.workflow.WorkflowDockerLookupActor.akka$actor$LoggingFSM$$super$processEvent(WorkflowDockerLookupActor.scala:45) at akka.actor.LoggingFSM.processEvent(FSM.scala:847) at akka.actor.LoggingFSM.processEvent$(FSM.scala:829) at cromwell.engine.workflow.WorkflowDockerLookupActor.processEvent(WorkflowDockerLookupActor.scala:45) at akka.actor.FSM.akka$actor$FSM$$processMsg(FSM.scala:701) at akka.actor.FSM$$anonfun$receive$1.applyOrElse(FSM.scala:695) at scala.runtime.AbstractPartialFunction.apply(AbstractPartialFunction.scala:35) at cromwell.docker.DockerClientHelper$$anonfun$dockerResponseReceive$1.applyOrElse(DockerClientHelper.scala:16) at scala.PartialFunction$OrElse.applyOrElse(PartialFunction.scala:269) at scala.PartialFunction$OrElse.applyOrElse(PartialFunction.scala:270) at akka.actor.Actor.aroundReceive(Actor.scala:539) at akka.actor.Actor.aroundReceive$(Actor.scala:537) at cromwell.engine.workflow.WorkflowDockerLookupActor.aroundReceive(WorkflowDockerLookupActor.scala:45) at akka.actor.ActorCell.receiveMessage(ActorCell.scala:614) at akka.actor.ActorCell.invoke(ActorCell.scala:583) at akka.dispatch.Mailbox.processMailbox(Mailbox.scala:268) at akka.dispatch.Mailbox.run(Mailbox.scala:229) at akka.dispatch.Mailbox.exec(Mailbox.scala:241) at akka.dispatch.forkjoin.ForkJoinTask.doExec(ForkJoinTask.java:260) at akka.dispatch.forkjoin.ForkJoinPool$WorkQueue.runTask(ForkJoinPool.java:1339) at akka.dispatch.forkjoin.ForkJoinPool.runWorker(ForkJoinPool.java:1979) at akka.dispatch.forkjoin.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:107)[INFO] [12/18/2025 07:26:41.631] [cromwell-system-akka.dispatchers.backend-dispatcher-1467] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-EngineJobExecutionActor-meta_workflow.Identify_analy:NA:1/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-BackendJobExecutionActor-meta_workflow.Identify_analy:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(b3c8ad44)meta_workflow.Identify_analy:NA:1]:
echo 'DATABASE' > result.txt
[INFO] [12/18/2025 07:26:41.632] [cromwell-system-akka.dispatchers.backend-dispatcher-1467] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-EngineJobExecutionActor-meta_workflow.Identify_analy:NA:1/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-BackendJobExecutionActor-meta_workflow.Identify_analy:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(b3c8ad44)meta_workflow.Identify_analy:NA:1]: Calculated TES outputs (found 5):
Output(Some(rc),Some(meta_workflow.Identify_analy.rc),Some(/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/rc),/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/rc,Some(FILE))
Output(Some(stdout),Some(meta_workflow.Identify_analy.stdout),Some(/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/stdout),/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/stdout,Some(FILE))
Output(Some(stderr),Some(meta_workflow.Identify_analy.stderr),Some(/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/stderr),/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/stderr,Some(FILE))
Output(Some(commandScript),Some(meta_workflow.Identify_analy.commandScript),Some(/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/script),/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/script,Some(FILE))
Output(Some(meta_workflow.Identify_analy.output.0),Some(meta_workflow.Identify_analy.output.0),Some(/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/result.txt),/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/result.txt,Some(FILE))[INFO] [12/18/2025 07:26:41.632] [cromwell-system-akka.dispatchers.backend-dispatcher-1467] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-EngineJobExecutionActor-meta_workflow.Identify_analy:NA:1/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-BackendJobExecutionActor-meta_workflow.Identify_analy:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(b3c8ad44)meta_workflow.Identify_analy:NA:1]: Calculated TES inputs (found 1):
cromwell.backend.impl.tes.Input(Some(commandScript),Some(meta_workflow.Identify_analy.commandScript),Some(/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/script),/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/script,Some(FILE),None)[INFO] [12/18/2025 07:26:41.632] [cromwell-system-akka.dispatchers.backend-dispatcher-1467] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-EngineJobExecutionActor-meta_workflow.Identify_analy:NA:1/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-BackendJobExecutionActor-meta_workflow.Identify_analy:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(b3c8ad44)meta_workflow.Identify_analy:NA:1]:
echo 'DATABASE' > result.txt
[INFO] [12/18/2025 07:26:46.175] [cromwell-system-akka.dispatchers.backend-dispatcher-1467] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-EngineJobExecutionActor-meta_workflow.Identify_analy:NA:1/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-BackendJobExecutionActor-meta_workflow.Identify_analy:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(b3c8ad44)meta_workflow.Identify_analy:NA:1]: job id: task-710bdfb8
[INFO] [12/18/2025 07:26:47.921] [cromwell-system-akka.dispatchers.backend-dispatcher-1436] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-EngineJobExecutionActor-meta_workflow.Identify_analy:NA:1/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-BackendJobExecutionActor-meta_workflow.Identify_analy:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(b3c8ad44)meta_workflow.Identify_analy:NA:1]: Status change from - to Running
[INFO] [12/18/2025 07:32:14.919] [cromwell-system-akka.dispatchers.backend-dispatcher-1436] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-EngineJobExecutionActor-meta_workflow.Identify_analy:NA:1/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-BackendJobExecutionActor-meta_workflow.Identify_analy:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(b3c8ad44)meta_workflow.Identify_analy:NA:1]: Job task-710bdfb8 is complete
[INFO] [12/18/2025 07:32:14.919] [cromwell-system-akka.dispatchers.backend-dispatcher-1436] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-EngineJobExecutionActor-meta_workflow.Identify_analy:NA:1/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-BackendJobExecutionActor-meta_workflow.Identify_analy:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(b3c8ad44)meta_workflow.Identify_analy:NA:1]: Status change from Running to Complete
[INFO] [12/18/2025 07:32:16.299] [cromwell-system-akka.dispatchers.engine-dispatcher-47] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b] WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b [UUID(b3c8ad44)]: Workflow meta_workflow complete. Final Outputs:
{
"meta_workflow.Identify_analy.out": "/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/result.txt"
}
[INFO] [12/18/2025 07:32:21.193] [cromwell-system-akka.dispatchers.engine-dispatcher-82] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor] WorkflowManagerActor: Workflow actor for b3c8ad44-dc3b-4e87-9fe9-97c0db47031b completed with status 'Succeeded'. The workflow will be removed from the workflow store. -
[INFO] [12/18/2025 07:26:16.905] [cromwell-system-akka.dispatchers.api-dispatcher-1503] [akka://cromwell-system/user/cromwell-service/WorkflowStoreActor/WorkflowStoreSubmitActor] Unspecified type (Unspecified version) workflow b3c8ad44-dc3b-4e87-9fe9-97c0db47031b submitted
[INFO] [12/18/2025 07:26:31.291] [cromwell-system-akka.dispatchers.engine-dispatcher-68] [akka://cromwell-system/user/cromwell-service/WorkflowStoreActor/WorkflowStoreEngineActor] 1 new workflows fetched by cromid-247fb6c: b3c8ad44-dc3b-4e87-9fe9-97c0db47031b
[INFO] [12/18/2025 07:26:31.291] [cromwell-system-akka.dispatchers.engine-dispatcher-68] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor] WorkflowManagerActor: Starting workflow UUID(b3c8ad44-dc3b-4e87-9fe9-97c0db47031b)
[INFO] [12/18/2025 07:26:31.291] [cromwell-system-akka.dispatchers.engine-dispatcher-68] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor] WorkflowManagerActor: Successfully started WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b
[INFO] [12/18/2025 07:26:31.291] [cromwell-system-akka.dispatchers.engine-dispatcher-68] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor] Retrieved 1 workflows from the WorkflowStoreActor
[INFO] [12/18/2025 07:26:31.293] [cromwell-system-akka.dispatchers.engine-dispatcher-74] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/MaterializeWorkflowDescriptorActor] MaterializeWorkflowDescriptorActor [UUID(b3c8ad44)]: Parsing workflow as WDL draft-2
[INFO] [12/18/2025 07:26:31.298] [cromwell-system-akka.dispatchers.engine-dispatcher-74] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/MaterializeWorkflowDescriptorActor] MaterializeWorkflowDescriptorActor [UUID(b3c8ad44)]: Call-to-Backend assignments: meta_workflow.Identify_analy -> TESK
[INFO] [12/18/2025 07:26:33.508] [cromwell-system-akka.dispatchers.engine-dispatcher-74] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b] WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b [UUID(b3c8ad44)]: Starting meta_workflow.Identify_analy
[INFO] [12/18/2025 07:26:41.267] [cromwell-system-akka.dispatchers.engine-dispatcher-55] [akka://cromwell-system/user/cromwell-service/JobExecutionTokenDispenser] Assigned new job execution tokens to the following groups: b3c8ad44: 1
[WARN] [12/18/2025 07:26:41.289] [cromwell-system-akka.dispatchers.engine-dispatcher-66] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-EngineJobExecutionActor-meta_workflow.Identify_analy:NA:1/BackendPreparationActor_for_b3c8ad44:meta_workflow.Identify_analy1] BackendPreparationActor_for_b3c8ad44:meta_workflow.Identify_analy1 [UUID(b3c8ad44)]: Docker lookup failed
java.lang.Exception: Failed to get docker hash for dockerhub.genostack.com:8090/library/ubuntu:18.04 Error running: docker images --digests --format {{printf "%s\t%s\t%s" .Repository .Tag .Digest}}
Exit code: 1
Cannot connect to the Docker daemon at unix:///var/run/docker.sock. Is the docker daemon running?at cromwell.engine.workflow.WorkflowDockerLookupActor.cromwell$engine$workflow$WorkflowDockerLookupActor$$handleLookupFailure(WorkflowDockerLookupActor.scala:279) at cromwell.engine.workflow.WorkflowDockerLookupActor$$anonfun$3.applyOrElse(WorkflowDockerLookupActor.scala:93) at cromwell.engine.workflow.WorkflowDockerLookupActor$$anonfun$3.applyOrElse(WorkflowDockerLookupActor.scala:78) at scala.runtime.AbstractPartialFunction.apply(AbstractPartialFunction.scala:35) at akka.actor.FSM.processEvent(FSM.scala:707) at akka.actor.FSM.processEvent$(FSM.scala:704) at cromwell.engine.workflow.WorkflowDockerLookupActor.akka$actor$LoggingFSM$$super$processEvent(WorkflowDockerLookupActor.scala:45) at akka.actor.LoggingFSM.processEvent(FSM.scala:847) at akka.actor.LoggingFSM.processEvent$(FSM.scala:829) at cromwell.engine.workflow.WorkflowDockerLookupActor.processEvent(WorkflowDockerLookupActor.scala:45) at akka.actor.FSM.akka$actor$FSM$$processMsg(FSM.scala:701) at akka.actor.FSM$$anonfun$receive$1.applyOrElse(FSM.scala:695) at scala.runtime.AbstractPartialFunction.apply(AbstractPartialFunction.scala:35) at cromwell.docker.DockerClientHelper$$anonfun$dockerResponseReceive$1.applyOrElse(DockerClientHelper.scala:16) at scala.PartialFunction$OrElse.applyOrElse(PartialFunction.scala:269) at scala.PartialFunction$OrElse.applyOrElse(PartialFunction.scala:270) at akka.actor.Actor.aroundReceive(Actor.scala:539) at akka.actor.Actor.aroundReceive$(Actor.scala:537) at cromwell.engine.workflow.WorkflowDockerLookupActor.aroundReceive(WorkflowDockerLookupActor.scala:45) at akka.actor.ActorCell.receiveMessage(ActorCell.scala:614) at akka.actor.ActorCell.invoke(ActorCell.scala:583) at akka.dispatch.Mailbox.processMailbox(Mailbox.scala:268) at akka.dispatch.Mailbox.run(Mailbox.scala:229) at akka.dispatch.Mailbox.exec(Mailbox.scala:241) at akka.dispatch.forkjoin.ForkJoinTask.doExec(ForkJoinTask.java:260) at akka.dispatch.forkjoin.ForkJoinPool$WorkQueue.runTask(ForkJoinPool.java:1339) at akka.dispatch.forkjoin.ForkJoinPool.runWorker(ForkJoinPool.java:1979) at akka.dispatch.forkjoin.ForkJoinWorkerThread.run(ForkJoinWorkerThread.java:107)[INFO] [12/18/2025 07:26:41.631] [cromwell-system-akka.dispatchers.backend-dispatcher-1467] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-EngineJobExecutionActor-meta_workflow.Identify_analy:NA:1/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-BackendJobExecutionActor-meta_workflow.Identify_analy:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(b3c8ad44)meta_workflow.Identify_analy:NA:1]:
echo 'DATABASE' > result.txt
[INFO] [12/18/2025 07:26:41.632] [cromwell-system-akka.dispatchers.backend-dispatcher-1467] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-EngineJobExecutionActor-meta_workflow.Identify_analy:NA:1/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-BackendJobExecutionActor-meta_workflow.Identify_analy:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(b3c8ad44)meta_workflow.Identify_analy:NA:1]: Calculated TES outputs (found 5):
Output(Some(rc),Some(meta_workflow.Identify_analy.rc),Some(/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/rc),/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/rc,Some(FILE))
Output(Some(stdout),Some(meta_workflow.Identify_analy.stdout),Some(/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/stdout),/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/stdout,Some(FILE))
Output(Some(stderr),Some(meta_workflow.Identify_analy.stderr),Some(/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/stderr),/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/stderr,Some(FILE))
Output(Some(commandScript),Some(meta_workflow.Identify_analy.commandScript),Some(/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/script),/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/script,Some(FILE))
Output(Some(meta_workflow.Identify_analy.output.0),Some(meta_workflow.Identify_analy.output.0),Some(/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/result.txt),/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/result.txt,Some(FILE))[INFO] [12/18/2025 07:26:41.632] [cromwell-system-akka.dispatchers.backend-dispatcher-1467] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-EngineJobExecutionActor-meta_workflow.Identify_analy:NA:1/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-BackendJobExecutionActor-meta_workflow.Identify_analy:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(b3c8ad44)meta_workflow.Identify_analy:NA:1]: Calculated TES inputs (found 1):
cromwell.backend.impl.tes.Input(Some(commandScript),Some(meta_workflow.Identify_analy.commandScript),Some(/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/script),/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/script,Some(FILE),None)[INFO] [12/18/2025 07:26:41.632] [cromwell-system-akka.dispatchers.backend-dispatcher-1467] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-EngineJobExecutionActor-meta_workflow.Identify_analy:NA:1/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-BackendJobExecutionActor-meta_workflow.Identify_analy:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(b3c8ad44)meta_workflow.Identify_analy:NA:1]:
echo 'DATABASE' > result.txt
[INFO] [12/18/2025 07:26:46.175] [cromwell-system-akka.dispatchers.backend-dispatcher-1467] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-EngineJobExecutionActor-meta_workflow.Identify_analy:NA:1/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-BackendJobExecutionActor-meta_workflow.Identify_analy:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(b3c8ad44)meta_workflow.Identify_analy:NA:1]: job id: task-710bdfb8
[INFO] [12/18/2025 07:26:47.921] [cromwell-system-akka.dispatchers.backend-dispatcher-1436] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-EngineJobExecutionActor-meta_workflow.Identify_analy:NA:1/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-BackendJobExecutionActor-meta_workflow.Identify_analy:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(b3c8ad44)meta_workflow.Identify_analy:NA:1]: Status change from - to Running
[INFO] [12/18/2025 07:32:14.919] [cromwell-system-akka.dispatchers.backend-dispatcher-1436] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-EngineJobExecutionActor-meta_workflow.Identify_analy:NA:1/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-BackendJobExecutionActor-meta_workflow.Identify_analy:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(b3c8ad44)meta_workflow.Identify_analy:NA:1]: Job task-710bdfb8 is complete
[INFO] [12/18/2025 07:32:14.919] [cromwell-system-akka.dispatchers.backend-dispatcher-1436] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-EngineJobExecutionActor-meta_workflow.Identify_analy:NA:1/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b-BackendJobExecutionActor-meta_workflow.Identify_analy:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(b3c8ad44)meta_workflow.Identify_analy:NA:1]: Status change from Running to Complete
[INFO] [12/18/2025 07:32:16.299] [cromwell-system-akka.dispatchers.engine-dispatcher-47] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b] WorkflowExecutionActor-b3c8ad44-dc3b-4e87-9fe9-97c0db47031b [UUID(b3c8ad44)]: Workflow meta_workflow complete. Final Outputs:
{
"meta_workflow.Identify_analy.out": "/cephfs_data/genostack_v3_dev/genostack_cromwell/cromwell-executions/meta_workflow/b3c8ad44-dc3b-4e87-9fe9-97c0db47031b/call-Identify_analy/execution/result.txt"
}
[INFO] [12/18/2025 07:32:21.193] [cromwell-system-akka.dispatchers.engine-dispatcher-82] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor] WorkflowManagerActor: Workflow actor for b3c8ad44-dc3b-4e87-9fe9-97c0db47031b completed with status 'Succeeded'. The workflow will be removed from the workflow store. -
[INFO] [12/18/2025 07:55:14.436] [cromwell-system-akka.dispatchers.backend-dispatcher-1296] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-6de70bcd-083a-4fd7-9198-9cbb2005dbe5/WorkflowExecutionActor-6de70bcd-083a-4fd7-9198-9cbb2005dbe5/6de70bcd-083a-4fd7-9198-9cbb2005dbe5-EngineJobExecutionActor-untarget_workflow.chemrich:NA:1/6de70bcd-083a-4fd7-9198-9cbb2005dbe5-BackendJobExecutionActor-untarget_workflow.chemrich:NA:1/TesAsyncBackendJobExecutionActor] TesAsyncBackendJobExecutionActor [UUID(6de70bcd)untarget_workflow.chemrich:NA:1]: Status change from Running to Complete
-
2025-12-19 14:46:41.752 [container-3592] INFO c.a.c.redis.MessagePubListener - 消费者消费: {"workflowId":"6d8348ea-1893-4b86-b9f7-d2616826f82c[INFO] [12/19/2025 06:45:22.157] [cromwell-system-akka.dispatchers.engine-dispatcher-83] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/b16ea7b9-0d2d-4f29-9ac0-cc8a0a6722bf/WorkflowExecutionActor-b16ea7b9-0d2d-4f29-9ac0-cc8a0a6722bf] WorkflowExecutionActor-b16ea7b9-0d2d-4f29-9ac0-cc8a0a6722bf [UUID(b16ea7b9)]: Starting amplicon_meta.W01_cleandata", "taskName":"", "status":"start", "type":"workflow", "time":"2025-12-19 14:46:36"}
[INFO] [12/19/2025 06:45:25.109] [cromwell-system-akka.dispatchers.engine-dispatcher-97] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor] WorkflowManagerActor: Successfully started WorkflowActor-6d8348ea-1893-4b86-b9f7-d2616826f82c[INFO] [12/19/2025 06:45:22.157] [cromwell-system-akka.dispatchers.engine-dispatcher-83] [akka://cromwell-system/user/cromwell-service/WorkflowManagerActor/WorkflowActor-b16ea7b9-0d2d-4f29-9ac0-cc8a0a6722bf/WorkflowExecutionActor-b16ea7b9-0d2d-4f29-9ac0-cc8a0a6722bf] WorkflowExecutionActor-b16ea7b9-0d2d-4f29-9ac0-cc8a0a6722bf [UUID(b16ea7b9)]: Starting amplicon_meta.W01_cleandata
-
5-12-23 06:22:21.512 UTC [26] LOG: database system was interrupted; last known up at 2025-12-23 06:21:21 UTC
2025-12-23 06:22:21.950 UTC [26] LOG: database system was not properly shut down; automatic recovery in progress
2025-12-23 06:22:21.954 UTC [26] LOG: redo starts at 18/9B999808
2025-12-23 06:22:21.955 UTC [26] LOG: invalid record length at 18/9BA06F18: wanted 24, got 0
2025-12-23 06:22:21.955 UTC [26] LOG: redo done at 18/9BA06EF0
2025-12-23 06:22:21.955 UTC [26] LOG: last completed transaction was at log time 2025-12-23 06:22:20.084128+00
2025-12-23 06:22:22.075 UTC [1] LOG: database system is ready to accept connections -
cluster:
id: 807d820b-5c5b-451c-9f52-41b93d5d905a
health: HEALTH_ERR
1 MDSs report oversized cache
1 MDSs are read only
2 MDSs behind on trimming
full ratio(s) out of order
Low space hindering backfill (add storage if this doesn't resolve itself): 10 pgs backfill_toofull
94 pgs not deep-scrubbed in time
69 pgs not scrubbed in timeservices:
mon: 3 daemons, quorum bm,bo,bp (age 13d)
mgr: b(active, since 2w), standbys: a
mds: 1/1 daemons up, 1 hot standby
osd: 51 osds: 51 up (since 13d), 51 in (since 2w); 67 remapped pgsdata:
volumes: 1/1 healthy
pools: 4 pools, 2097 pgs
objects: 279.98M objects, 306 TiB
usage: 619 TiB used, 82 TiB / 701 TiB avail
pgs: 3748313/601598194 objects misplaced (0.623%)
2024 active+clean
57 active+remapped+backfilling
10 active+remapped+backfill_toofull
6 active+clean+scrubbing+deepio:
client: 1.2 MiB/s rd, 100 KiB/s wr, 183 op/s rd, 19 op/s wr
recovery: 52 MiB/s, 37 objects/s -
cluster:
id: 807d820b-5c5b-451c-9f52-41b93d5d905a
health: HEALTH_ERR
1 MDSs report oversized cache
1 MDSs are read only
2 MDSs behind on trimming
full ratio(s) out of order
Low space hindering backfill (add storage if this doesn't resolve itself): 10 pgs backfill_toofull
94 pgs not deep-scrubbed in time
69 pgs not scrubbed in timeservices:
mon: 3 daemons, quorum bm,bo,bp (age 13d)
mgr: b(active, since 2w), standbys: a
mds: 1/1 daemons up, 1 hot standby
osd: 51 osds: 51 up (since 13d), 51 in (since 2w); 67 remapped pgsdata:
volumes: 1/1 healthy
pools: 4 pools, 2097 pgs
objects: 279.98M objects, 306 TiB
usage: 619 TiB used, 82 TiB / 701 TiB avail
pgs: 3748313/601598194 objects misplaced (0.623%)
2024 active+clean
57 active+remapped+backfilling
10 active+remapped+backfill_toofull
6 active+clean+scrubbing+deepio:
client: 1.2 MiB/s rd, 100 KiB/s wr, 183 op/s rd, 19 op/s wr
recovery: 52 MiB/s, 37 objects/s -
Image: registry.k8s.io/sig-storage/csi-node-driver-registrar:v2.5.1 Image: quay.io/cephcsi/cephcsi:v3.7.2 Image: registry.k8s.io/sig-storage/csi-node-driver-registrar:v2.5.1 Image: quay.io/cephcsi/cephcsi:v3.7.2 Image: registry.k8s.io/sig-storage/csi-node-driver-registrar:v2.5.1 Image: quay.io/cephcsi/cephcsi:v3.7.2 Image: registry.k8s.io/sig-storage/csi-node-driver-registrar:v2.5.1 Image: quay.io/cephcsi/cephcsi:v3.7.2 Image: registry.k8s.io/sig-storage/csi-node-driver-registrar:v2.5.1 Image: quay.io/cephcsi/cephcsi:v3.7.2 Image: registry.k8s.io/sig-storage/csi-attacher:v4.0.0 Image: registry.k8s.io/sig-storage/csi-snapshotter:v6.1.0 Image: registry.k8s.io/sig-storage/csi-resizer:v1.6.0 Image: registry.k8s.io/sig-storage/csi-provisioner:v3.3.0 Image: quay.io/cephcsi/cephcsi:v3.7.2 Image: registry.k8s.io/sig-storage/csi-attacher:v4.0.0 Image: registry.k8s.io/sig-storage/csi-snapshotter:v6.1.0 Image: registry.k8s.io/sig-storage/csi-resizer:v1.6.0 Image: registry.k8s.io/sig-storage/csi-provisioner:v3.3.0 Image: quay.io/cephcsi/cephcsi:v3.7.2 Image: registry.k8s.io/sig-storage/csi-node-driver-registrar:v2.5.1 Image: quay.io/cephcsi/cephcsi:v3.7.2 Image: registry.k8s.io/sig-storage/csi-node-driver-registrar:v2.5.1 Image: quay.io/cephcsi/cephcsi:v3.7.2 Image: registry.k8s.io/sig-storage/csi-node-driver-registrar:v2.5.1 Image: quay.io/cephcsi/cephcsi:v3.7.2 Image: registry.k8s.io/sig-storage/csi-node-driver-registrar:v2.5.1 Image: quay.io/cephcsi/cephcsi:v3.7.2 Image: registry.k8s.io/sig-storage/csi-node-driver-registrar:v2.5.1 Image: quay.io/cephcsi/cephcsi:v3.7.2 Image: registry.k8s.io/sig-storage/csi-node-driver-registrar:v2.5.1 Image: quay.io/cephcsi/cephcsi:v3.7.2 Image: registry.k8s.io/sig-storage/csi-provisioner:v3.3.0 Image: registry.k8s.io/sig-storage/csi-resizer:v1.6.0 Image: registry.k8s.io/sig-storage/csi-attacher:v4.0.0 Image: registry.k8s.io/sig-storage/csi-snapshotter:v6.1.0 Image: quay.io/cephcsi/cephcsi:v3.7.2 Image: registry.k8s.io/sig-storage/csi-provisioner:v3.3.0 Image: registry.k8s.io/sig-storage/csi-resizer:v1.6.0 Image: registry.k8s.io/sig-storage/csi-attacher:v4.0.0 Image: registry.k8s.io/sig-storage/csi-snapshotter:v6.1.0 Image: quay.io/cephcsi/cephcsi:v3.7.2 Image: registry.k8s.io/sig-storage/csi-node-driver-registrar:v2.5.1 Image: quay.io/cephcsi/cephcsi:v3.7.2 Image: registry.k8s.io/sig-storage/csi-node-driver-registrar:v2.5.1 Image: quay.io/cephcsi/cephcsi:v3.7.2 Image: registry.k8s.io/sig-storage/csi-node-driver-registrar:v2.5.1 Image: quay.io/cephcsi/cephcsi:v3.7.2 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: rook/ceph:v1.10.8 Image: quay.io/cephcsi/cephcsi:v3.7.2 Image: rook/ceph:v1.10.8 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: rook/ceph:v1.10.8 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: rook/ceph:v1.10.8 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: quay.io/ceph/ceph:v17.2.5 Image: 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Image: quay.io/calico/kube-controllers:v3.16.5 Image: quay.io/calico/cni:v3.16.5 Image: quay.io/calico/cni:v3.16.5 Image: quay.io/calico/node:v3.16.5 Image: quay.io/calico/cni:v3.16.5 Image: quay.io/calico/cni:v3.16.5 Image: quay.io/calico/node:v3.16.5 Image: quay.io/calico/cni:v3.16.5 Image: quay.io/calico/cni:v3.16.5 Image: quay.io/calico/node:v3.16.5 Image: quay.io/calico/cni:v3.16.5 Image: quay.io/calico/cni:v3.16.5 Image: quay.io/calico/node:v3.16.5 Image: quay.io/calico/cni:v3.16.5 Image: quay.io/calico/cni:v3.16.5 Image: quay.io/calico/node:v3.16.5 Image: quay.io/calico/cni:v3.16.5 Image: quay.io/calico/cni:v3.16.5 Image: quay.io/calico/node:v3.16.5 Image: quay.io/calico/cni:v3.16.5 Image: quay.io/calico/cni:v3.16.5 Image: quay.io/calico/node:v3.16.5 Image: k8s.gcr.io/coredns:1.7.0 Image: k8s.gcr.io/coredns:1.7.0 Image: k8s.gcr.io/coredns:1.7.0 Image: k8s.gcr.io/coredns:1.7.0 Image: k8s.gcr.io/coredns:1.7.0 Image: k8s.gcr.io/coredns:1.7.0 Image: k8s.gcr.io/cpa/cluster-proportional-autoscaler-amd64:1.8.3 Image: k8s.gcr.io/kube-apiserver:v1.19.7 Image: k8s.gcr.io/kube-apiserver:v1.19.7 Image: k8s.gcr.io/kube-controller-manager:v1.19.7 Image: k8s.gcr.io/kube-controller-manager:v1.19.7 Image: k8s.gcr.io/kube-proxy:v1.19.7 Image: k8s.gcr.io/kube-proxy:v1.19.7 Image: k8s.gcr.io/kube-proxy:v1.19.7 Image: k8s.gcr.io/kube-proxy:v1.19.7 Image: k8s.gcr.io/kube-proxy:v1.19.7 Image: k8s.gcr.io/kube-proxy:v1.19.7 Image: k8s.gcr.io/kube-proxy:v1.19.7 Image: k8s.gcr.io/kube-scheduler:v1.19.7 Image: k8s.gcr.io/kube-scheduler:v1.19.7 Image: docker.io/library/nginx:1.19 Image: docker.io/library/nginx:1.19 Image: docker.io/library/nginx:1.19 Image: docker.io/library/nginx:1.19 Image: docker.io/library/nginx:1.19 Image: k8s.gcr.io/dns/k8s-dns-node-cache:1.16.0 Image: k8s.gcr.io/dns/k8s-dns-node-cache:1.16.0 Image: k8s.gcr.io/dns/k8s-dns-node-cache:1.16.0 Image: k8s.gcr.io/dns/k8s-dns-node-cache:1.16.0 Image: k8s.gcr.io/dns/k8s-dns-node-cache:1.16.0 Image: k8s.gcr.io/dns/k8s-dns-node-cache:1.16.0 Image: k8s.gcr.io/dns/k8s-dns-node-cache:1.16.0 Image: nvcr.io/nvidia/k8s-device-plugin:v0.17.1 Image: nvcr.io/nvidia/k8s-device-plugin:v0.17.1 Image: nvcr.io/nvidia/k8s-device-plugin:v0.17.1 Image: nvcr.io/nvidia/k8s-device-plugin:v0.17.1 Image: nvcr.io/nvidia/k8s-device-plugin:v0.17.1 Image: nvcr.io/nvidia/k8s-device-plugin:v0.17.1 Image: nvcr.io/nvidia/k8s-device-plugin:v0.17.1 Image: csiplugin/snapshot-controller:v4.0.0 -
docker save registry.k8s.io/sig-storage/csi-node-driver-registrar:v2.5.1 -o csi-node-driver-registrar.tar
docker save quay.io/cephcsi/cephcsi:v3.7.2 -o cephcsi.tgar
docker save registry.k8s.io/sig-storage/csi-attacher:v4.0.0 -o csi-attacher.tar
docker save registry.k8s.io/sig-storage/csi-snapshotter:v6.1.0 -o csi-snapshotter.tar
docker save registry.k8s.io/sig-storage/csi-resizer:v1.6.0 -o csi-resizer.tar
docker save registry.k8s.io/sig-storage/csi-provisioner:v3.3.0 -o csi-provisioner.tar
docker save quay.io/ceph/ceph:v17.2.5 -o ceph1.tar
docker save rook/ceph:v1.10.8 -o ceph.tardocker save quay.io/calico/kube-controllers:v3.16.5 -o kube-controllers.tar
docker save quay.io/calico/cni:v3.16.5 -o cni.tar
docker save quay.io/calico/node:v3.16.5 -o node.tar
docker save k8s.gcr.io/coredns:1.7.0 -o coredns.tar
docker save k8s.gcr.io/cpa/cluster-proportional-autoscaler-amd64:1.8.3 -o cluster-proportional-autoscaler-amd64.tar
docker save k8s.gcr.io/kube-apiserver:v1.19.7 -o apiserver.tar
docker save k8s.gcr.io/kube-controller-manager:v1.19.7 -o manager.tar
docker save k8s.gcr.io/kube-proxy:v1.19.7 -o proxy.tar
docker save k8s.gcr.io/kube-scheduler:v1.19.7 -o scheduler.tar
docker save docker.io/library/nginx:1.19 -o ngins.tar
docker save k8s.gcr.io/dns/k8s-dns-node-cache:1.16.0 -o cache.tar
docker save nvcr.io/nvidia/k8s-device-plugin:v0.17.1 -o plugin.tar
docker save csiplugin/snapshot-controller:v4.0.0 -o controller.tar