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lindenb/nextflow.log

Created October 19, 2023 17:11
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nextflow cut&run. Nothing happens and .nextflow.log contains java stackTrace about aws.
Raw
nextflow.log
Oct-19 19:04:09.799 [S3TransferManager-6] WARN c.a.i.InstanceMetadataServiceResourceFetcher - Fail to retrieve token
com.amazonaws.SdkClientException: Failed to connect to service endpoint:
at com.amazonaws.internal.EC2ResourceFetcher.doReadResource(EC2ResourceFetcher.java:100)
at com.amazonaws.internal.InstanceMetadataServiceResourceFetcher.getToken(InstanceMetadataServiceResourceFetcher.java:91)
at com.amazonaws.internal.InstanceMetadataServiceResourceFetcher.readResource(InstanceMetadataServiceResourceFetcher.java:69)
at com.amazonaws.internal.EC2ResourceFetcher.readResource(EC2ResourceFetcher.java:66)
at com.amazonaws.auth.InstanceMetadataServiceCredentialsFetcher.getCredentialsEndpoint(InstanceMetadataServiceCredentialsFetcher.java:60)
at com.amazonaws.auth.InstanceMetadataServiceCredentialsFetcher.getCredentialsResponse(InstanceMetadataServiceCredentialsFetcher.java:48)
at com.amazonaws.auth.BaseCredentialsFetcher.fetchCredentials(BaseCredentialsFetcher.java:124)
at com.amazonaws.auth.BaseCredentialsFetcher.getCredentials(BaseCredentialsFetcher.java:80)
at com.amazonaws.auth.InstanceProfileCredentialsProvider.getCredentials(InstanceProfileCredentialsProvider.java:166)
at com.amazonaws.auth.EC2ContainerCredentialsProviderWrapper.getCredentials(EC2ContainerCredentialsProviderWrapper.java:75)
at com.amazonaws.auth.AWSCredentialsProviderChain.getCredentials(AWSCredentialsProviderChain.java:118)
at com.amazonaws.services.s3.S3CredentialsProviderChain.getCredentials(S3CredentialsProviderChain.java:36)
at com.amazonaws.http.AmazonHttpClient$RequestExecutor.getCredentialsFromContext(AmazonHttpClient.java:1269)
at com.amazonaws.http.AmazonHttpClient$RequestExecutor.runBeforeRequestHandlers(AmazonHttpClient.java:845)
at com.amazonaws.http.AmazonHttpClient$RequestExecutor.doExecute(AmazonHttpClient.java:794)
at com.amazonaws.http.AmazonHttpClient$RequestExecutor.executeWithTimer(AmazonHttpClient.java:781)
at com.amazonaws.http.AmazonHttpClient$RequestExecutor.execute(AmazonHttpClient.java:755)
at com.amazonaws.http.AmazonHttpClient$RequestExecutor.access$500(AmazonHttpClient.java:715)
at com.amazonaws.http.AmazonHttpClient$RequestExecutionBuilderImpl.execute(AmazonHttpClient.java:697)
at com.amazonaws.http.AmazonHttpClient.execute(AmazonHttpClient.java:561)
at com.amazonaws.http.AmazonHttpClient.execute(AmazonHttpClient.java:541)
at com.amazonaws.services.s3.AmazonS3Client.invoke(AmazonS3Client.java:5456)
at com.amazonaws.services.s3.AmazonS3Client.invoke(AmazonS3Client.java:5403)
at com.amazonaws.services.s3.AmazonS3Client.getObject(AmazonS3Client.java:1524)
at com.amazonaws.services.s3.transfer.DownloadCallable$1.call(DownloadCallable.java:187)
at com.amazonaws.services.s3.transfer.DownloadCallable$1.call(DownloadCallable.java:184)
at com.amazonaws.services.s3.transfer.internal.DownloadS3ObjectCallable.call(DownloadS3ObjectCallable.java:63)
at com.amazonaws.services.s3.transfer.internal.DownloadS3ObjectCallable.call(DownloadS3ObjectCallable.java:36)
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:264)
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1136)
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635)
at java.base/java.lang.Thread.run(Thread.java:833)
Caused by: java.net.NoRouteToHostException: No route to host
at java.base/sun.nio.ch.Net.pollConnect(Native Method)
at java.base/sun.nio.ch.Net.pollConnectNow(Net.java:672)
at java.base/sun.nio.ch.NioSocketImpl.timedFinishConnect(NioSocketImpl.java:549)
at java.base/sun.nio.ch.NioSocketImpl.connect(NioSocketImpl.java:597)
at java.base/java.net.Socket.connect(Socket.java:633)
at java.base/sun.net.NetworkClient.doConnect(NetworkClient.java:178)
at java.base/sun.net.www.http.HttpClient.openServer(HttpClient.java:534)
at java.base/sun.net.www.http.HttpClient.openServer(HttpClient.java:639)
at java.base/sun.net.www.http.HttpClient.<init>(HttpClient.java:282)
at java.base/sun.net.www.http.HttpClient.New(HttpClient.java:387)
at java.base/sun.net.www.http.HttpClient.New(HttpClient.java:409)
at java.base/sun.net.www.protocol.http.HttpURLConnection.getNewHttpClient(HttpURLConnection.java:1309)
at java.base/sun.net.www.protocol.http.HttpURLConnection.plainConnect0(HttpURLConnection.java:1287)
at java.base/sun.net.www.protocol.http.HttpURLConnection.plainConnect(HttpURLConnection.java:1128)
at java.base/sun.net.www.protocol.http.HttpURLConnection.connect(HttpURLConnection.java:1057)
at com.amazonaws.internal.ConnectionUtils.connectToEndpoint(ConnectionUtils.java:95)
at com.amazonaws.internal.EC2ResourceFetcher.doReadResource(EC2ResourceFetcher.java:80)
... 31 common frames omitted
Oct-19 19:04:27.893 [S3TransferManager-10] WARN c.a.i.InstanceMetadataServiceResourceFetcher - Fail to retrieve token
com.amazonaws.SdkClientException: Failed to connect to service endpoint:
at com.amazonaws.internal.EC2ResourceFetcher.doReadResource(EC2ResourceFetcher.java:100)
at com.amazonaws.internal.InstanceMetadataServiceResourceFetcher.getToken(InstanceMetadataServiceResourceFetcher.java:91)
at com.amazonaws.internal.InstanceMetadataServiceResourceFetcher.readResource(InstanceMetadataServiceResourceFetcher.java:69)
at com.amazonaws.internal.EC2ResourceFetcher.readResource(EC2ResourceFetcher.java:66)
at com.amazonaws.auth.InstanceMetadataServiceCredentialsFetcher.getCredentialsEndpoint(InstanceMetadataServiceCredentialsFetcher.java:60)
at com.amazonaws.auth.InstanceMetadataServiceCredentialsFetcher.getCredentialsResponse(InstanceMetadataServiceCredentialsFetcher.java:48)
at com.amazonaws.auth.BaseCredentialsFetcher.fetchCredentials(BaseCredentialsFetcher.java:124)
at com.amazonaws.auth.BaseCredentialsFetcher.getCredentials(BaseCredentialsFetcher.java:80)
at com.amazonaws.auth.InstanceProfileCredentialsProvider.getCredentials(InstanceProfileCredentialsProvider.java:166)
at com.amazonaws.auth.EC2ContainerCredentialsProviderWrapper.getCredentials(EC2ContainerCredentialsProviderWrapper.java:75)
at com.amazonaws.auth.AWSCredentialsProviderChain.getCredentials(AWSCredentialsProviderChain.java:118)
at com.amazonaws.services.s3.S3CredentialsProviderChain.getCredentials(S3CredentialsProviderChain.java:36)
at com.amazonaws.http.AmazonHttpClient$RequestExecutor.getCredentialsFromContext(AmazonHttpClient.java:1269)
at com.amazonaws.http.AmazonHttpClient$RequestExecutor.runBeforeRequestHandlers(AmazonHttpClient.java:845)
at com.amazonaws.http.AmazonHttpClient$RequestExecutor.doExecute(AmazonHttpClient.java:794)
at com.amazonaws.http.AmazonHttpClient$RequestExecutor.executeWithTimer(AmazonHttpClient.java:781)
at com.amazonaws.http.AmazonHttpClient$RequestExecutor.execute(AmazonHttpClient.java:755)
at com.amazonaws.http.AmazonHttpClient$RequestExecutor.access$500(AmazonHttpClient.java:715)
at com.amazonaws.http.AmazonHttpClient$RequestExecutionBuilderImpl.execute(AmazonHttpClient.java:697)
at com.amazonaws.http.AmazonHttpClient.execute(AmazonHttpClient.java:561)
at com.amazonaws.http.AmazonHttpClient.execute(AmazonHttpClient.java:541)
at com.amazonaws.services.s3.AmazonS3Client.invoke(AmazonS3Client.java:5456)
at com.amazonaws.services.s3.AmazonS3Client.invoke(AmazonS3Client.java:5403)
at com.amazonaws.services.s3.AmazonS3Client.getObject(AmazonS3Client.java:1524)
at com.amazonaws.services.s3.transfer.DownloadCallable$1.call(DownloadCallable.java:187)
at com.amazonaws.services.s3.transfer.DownloadCallable$1.call(DownloadCallable.java:184)
at com.amazonaws.services.s3.transfer.internal.DownloadS3ObjectCallable.call(DownloadS3ObjectCallable.java:63)
at com.amazonaws.services.s3.transfer.internal.DownloadS3ObjectCallable.call(DownloadS3ObjectCallable.java:36)
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:264)
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1136)
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635)
at java.base/java.lang.Thread.run(Thread.java:833)
Caused by: java.net.NoRouteToHostException: No route to host
at java.base/sun.nio.ch.Net.pollConnect(Native Method)
at java.base/sun.nio.ch.Net.pollConnectNow(Net.java:672)
at java.base/sun.nio.ch.NioSocketImpl.timedFinishConnect(NioSocketImpl.java:549)
at java.base/sun.nio.ch.NioSocketImpl.connect(NioSocketImpl.java:597)
at java.base/java.net.Socket.connect(Socket.java:633)
at java.base/sun.net.NetworkClient.doConnect(NetworkClient.java:178)
at java.base/sun.net.www.http.HttpClient.openServer(HttpClient.java:534)
at java.base/sun.net.www.http.HttpClient.openServer(HttpClient.java:639)
at java.base/sun.net.www.http.HttpClient.<init>(HttpClient.java:282)
at java.base/sun.net.www.http.HttpClient.New(HttpClient.java:387)
at java.base/sun.net.www.http.HttpClient.New(HttpClient.java:409)
at java.base/sun.net.www.protocol.http.HttpURLConnection.getNewHttpClient(HttpURLConnection.java:1309)
at java.base/sun.net.www.protocol.http.HttpURLConnection.plainConnect0(HttpURLConnection.java:1287)
at java.base/sun.net.www.protocol.http.HttpURLConnection.plainConnect(HttpURLConnection.java:1128)
at java.base/sun.net.www.protocol.http.HttpURLConnection.connect(HttpURLConnection.java:1057)
at com.amazonaws.internal.ConnectionUtils.connectToEndpoint(ConnectionUtils.java:95)
at com.amazonaws.internal.EC2ResourceFetcher.doReadResource(EC2ResourceFetcher.java:80)
... 31 common frames omitted
Oct-19 19:04:30.963 [S3TransferManager-10] WARN c.a.i.InstanceMetadataServiceResourceFetcher - Fail to retrieve token
com.amazonaws.SdkClientException: Failed to connect to service endpoint:
at com.amazonaws.internal.EC2ResourceFetcher.doReadResource(EC2ResourceFetcher.java:100)
at com.amazonaws.internal.InstanceMetadataServiceResourceFetcher.getToken(InstanceMetadataServiceResourceFetcher.java:91)
at com.amazonaws.internal.InstanceMetadataServiceResourceFetcher.readResource(InstanceMetadataServiceResourceFetcher.java:69)
at com.amazonaws.internal.EC2ResourceFetcher.readResource(EC2ResourceFetcher.java:66)
at com.amazonaws.auth.InstanceMetadataServiceCredentialsFetcher.getCredentialsEndpoint(InstanceMetadataServiceCredentialsFetcher.java:60)
at com.amazonaws.auth.InstanceMetadataServiceCredentialsFetcher.getCredentialsResponse(InstanceMetadataServiceCredentialsFetcher.java:48)
at com.amazonaws.auth.BaseCredentialsFetcher.fetchCredentials(BaseCredentialsFetcher.java:124)
at com.amazonaws.auth.BaseCredentialsFetcher.getCredentials(BaseCredentialsFetcher.java:80)
at com.amazonaws.auth.InstanceProfileCredentialsProvider.getCredentials(InstanceProfileCredentialsProvider.java:166)
at com.amazonaws.auth.EC2ContainerCredentialsProviderWrapper.getCredentials(EC2ContainerCredentialsProviderWrapper.java:75)
at com.amazonaws.auth.AWSCredentialsProviderChain.getCredentials(AWSCredentialsProviderChain.java:118)
at com.amazonaws.services.s3.S3CredentialsProviderChain.getCredentials(S3CredentialsProviderChain.java:36)
at com.amazonaws.http.AmazonHttpClient$RequestExecutor.getCredentialsFromContext(AmazonHttpClient.java:1269)
at com.amazonaws.http.AmazonHttpClient$RequestExecutor.executeOneRequest(AmazonHttpClient.java:1290)
at com.amazonaws.http.AmazonHttpClient$RequestExecutor.executeHelper(AmazonHttpClient.java:1157)
at com.amazonaws.http.AmazonHttpClient$RequestExecutor.doExecute(AmazonHttpClient.java:814)
at com.amazonaws.http.AmazonHttpClient$RequestExecutor.executeWithTimer(AmazonHttpClient.java:781)
at com.amazonaws.http.AmazonHttpClient$RequestExecutor.execute(AmazonHttpClient.java:755)
at com.amazonaws.http.AmazonHttpClient$RequestExecutor.access$500(AmazonHttpClient.java:715)
at com.amazonaws.http.AmazonHttpClient$RequestExecutionBuilderImpl.execute(AmazonHttpClient.java:697)
at com.amazonaws.http.AmazonHttpClient.execute(AmazonHttpClient.java:561)
at com.amazonaws.http.AmazonHttpClient.execute(AmazonHttpClient.java:541)
at com.amazonaws.services.s3.AmazonS3Client.invoke(AmazonS3Client.java:5456)
at com.amazonaws.services.s3.AmazonS3Client.invoke(AmazonS3Client.java:5403)
at com.amazonaws.services.s3.AmazonS3Client.getObject(AmazonS3Client.java:1524)
at com.amazonaws.services.s3.transfer.DownloadCallable$1.call(DownloadCallable.java:187)
at com.amazonaws.services.s3.transfer.DownloadCallable$1.call(DownloadCallable.java:184)
at com.amazonaws.services.s3.transfer.internal.DownloadS3ObjectCallable.call(DownloadS3ObjectCallable.java:63)
at com.amazonaws.services.s3.transfer.internal.DownloadS3ObjectCallable.call(DownloadS3ObjectCallable.java:36)
at java.base/java.util.concurrent.FutureTask.run(FutureTask.java:264)
at java.base/java.util.concurrent.ThreadPoolExecutor.runWorker(ThreadPoolExecutor.java:1136)
at java.base/java.util.concurrent.ThreadPoolExecutor$Worker.run(ThreadPoolExecutor.java:635)
at java.base/java.lang.Thread.run(Thread.java:833)
Caused by: java.net.NoRouteToHostException: No route to host
at java.base/sun.nio.ch.Net.pollConnect(Native Method)
at java.base/sun.nio.ch.Net.pollConnectNow(Net.java:672)
at java.base/sun.nio.ch.NioSocketImpl.timedFinishConnect(NioSocketImpl.java:549)
at java.base/sun.nio.ch.NioSocketImpl.connect(NioSocketImpl.java:597)
at java.base/java.net.Socket.connect(Socket.java:633)
at java.base/sun.net.NetworkClient.doConnect(NetworkClient.java:178)
at java.base/sun.net.www.http.HttpClient.openServer(HttpClient.java:534)
at java.base/sun.net.www.http.HttpClient.openServer(HttpClient.java:639)
at java.base/sun.net.www.http.HttpClient.<init>(HttpClient.java:282)
at java.base/sun.net.www.http.HttpClient.New(HttpClient.java:387)
at java.base/sun.net.www.http.HttpClient.New(HttpClient.java:409)
at java.base/sun.net.www.protocol.http.HttpURLConnection.getNewHttpClient(HttpURLConnection.java:1309)
at java.base/sun.net.www.protocol.http.HttpURLConnection.plainConnect0(HttpURLConnection.java:1287)
at java.base/sun.net.www.protocol.http.HttpURLConnection.plainConnect(HttpURLConnection.java:1128)
at java.base/sun.net.www.protocol.http.HttpURLConnection.connect(HttpURLConnection.java:1057)
at com.amazonaws.internal.ConnectionUtils.connectToEndpoint(ConnectionUtils.java:95)
at com.amazonaws.internal.EC2ResourceFetcher.doReadResource(EC2ResourceFetcher.java:80)
... 32 common frames omitted
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