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secretflow / kuscia

Kuscia(Kubernetes-based Secure Collaborative InfrA) is a K8s-based privacy-preserving computing task orchestration framework.
https://www.secretflow.org.cn/docs/kuscia/latest/zh-Hans
Apache License 2.0
72 stars 50 forks source link

磁盘容量占用问题 #431

Open JiaIcecream opened 6 days ago

JiaIcecream commented 6 days ago

Issue Type

Install/Deploy

Search for existing issues similar to yours

Yes

OS Platform and Distribution

ubuntu 20.04

Kuscia Version

kuscia v0.8.0b0

Deployment

docker

deployment Version

23.0.6

App Running type

secretflow

App Running version

secretflow 1.5.0b0

Configuration file used to run kuscia.

{
  "job_id": "reefr2024092413473599050",
  "initiator": "com2023011620060497797",
  "max_parallelism": 1,
  "tasks": [
    {
      "task_id": "reefr2024092413473599050-qagbmwrn-node-35",
      "app_image": "secretflow-image",
      "alias": "reefr2024092413473599050-qagbmwrn-node-35",
      "priority": 100,
      "parties": [
        {
          "domain_id": "com2023011620060497797",
          "role": "partner"
        },
        {
          "domain_id": "com2023011620072311738",
          "role": "partner"
        }
      ],
      "dependencies": [],
      "task_input_config": {
        "sf_cluster_desc": {
          "devices": [
            {
              "config": "{\"runtime_config\":{\"protocol\":\"SEMI2K\",\"field\":\"FM128\"},\"party_address\":{\"com2023011620060497797\":\"172.16.16.111\",\"com2023011620072311738\":\"172.16.16.116\"},\"link_desc\":{\"connect_retry_times\":60,\"connect_retry_interval_ms\":1000,\"brpc_channel_protocol\":\"http\",\"brpc_channel_connection_type\":\"pooled\",\"recv_timeout_ms\":1200000,\"http_timeout_ms\":1200000}}",
              "name": "spu",
              "parties": [
                "com2023011620060497797",
                "com2023011620072311738"
              ],
              "type": "spu"
            },
            {
              "config": "{\"mode\":\"PHEU\",\"schema\":\"paillier\",\"key_size\":2048}",
              "name": "heu",
              "parties": [
                "com2023011620060497797",
                "com2023011620072311738"
              ],
              "type": "heu"
            }
          ],
          "parties": [
            "com2023011620060497797",
            "com2023011620072311738"
          ],
          "ray_fed_config": {
            "cross_silo_comm_backend": "brpc_link"
          }
        },
        "sf_datasource_config": {
          "com2023011620060497797": {
            "id": "default-data-source"
          },
          "com2023011620072311738": {
            "id": "default-data-source"
          }
        },
        "sf_input_ids": [
          "res2024082209552885306",
          "res2024082210012837065"
        ],
        "sf_node_eval_param": {
          "attr_paths": [
            "input/receiver_input/key",
            "input/sender_input/key",
            "protocol",
            "sort_result",
            "allow_duplicate_keys",
            "allow_duplicate_keys/no/skip_duplicates_check",
            "fill_value_int",
            "ecdh_curve"
          ],
          "attrs": [
            {
              "is_na": false,
              "ss": [
                "id1"
              ]
            },
            {
              "is_na": false,
              "ss": [
                "id2"
              ]
            },
            {
              "is_na": false,
              "s": "PROTOCOL_RR22"
            },
            {
              "b": true,
              "is_na": false
            },
            {
              "is_na": false,
              "s": "no"
            },
            {
              "is_na": true
            },
            {
              "is_na": true
            },
            {
              "is_na": false,
              "s": "CURVE_FOURQ"
            }
          ],
          "checkpoint_uri": "ckbeob-qagbmwrn-node-35-output-0",
          "domain": "data_prep",
          "inputs": [
            {
              "data_refs": [
                {
                  "format": "csv",
                  "party": "com2023011620060497797",
                  "uri": "1724291682857_diabetes-active000.csv"
                }
              ],
              "meta": {
                "@type": "type.googleapis.com/secretflow.spec.v1.IndividualTable",
                "line_count": "-1"
              },
              "type": "sf.table.individual"
            },
            {
              "data_refs": [
                {
                  "format": "csv",
                  "party": "com2023011620072311738",
                  "uri": "1724292080572_diabetes-passive001.csv"
                }
              ],
              "meta": {
                "@type": "type.googleapis.com/secretflow.spec.v1.IndividualTable",
                "line_count": "-1"
              },
              "type": "sf.table.individual"
            }
          ],
          "name": "psi",
          "version": "0.0.5"
        },
        "sf_output_ids": [
          "reefr2024092413473599050-qagbmwrn-node-35-output-0"
        ],
        "sf_output_uris": [
          "reefr2024092413473599050-qagbmwrn-node-35-output-0"
        ]
      }
    },
    {
      "task_id": "reefr2024092413473599050-qagbmwrn-node-36",
      "app_image": "secretflow-image",
      "alias": "reefr2024092413473599050-qagbmwrn-node-36",
      "priority": 100,
      "parties": [
        {
          "domain_id": "com2023011620060497797",
          "role": "partner"
        },
        {
          "domain_id": "com2023011620072311738",
          "role": "partner"
        }
      ],
      "dependencies": [
        "reefr2024092413473599050-qagbmwrn-node-35"
      ],
      "task_input_config": {
        "sf_cluster_desc": {
          "devices": [
            {
              "config": "{\"runtime_config\":{\"protocol\":\"SEMI2K\",\"field\":\"FM128\"},\"party_address\":{\"com2023011620060497797\":\"172.16.16.111\",\"com2023011620072311738\":\"172.16.16.116\"},\"link_desc\":{\"connect_retry_times\":60,\"connect_retry_interval_ms\":1000,\"brpc_channel_protocol\":\"http\",\"brpc_channel_connection_type\":\"pooled\",\"recv_timeout_ms\":1200000,\"http_timeout_ms\":1200000}}",
              "name": "spu",
              "parties": [
                "com2023011620060497797",
                "com2023011620072311738"
              ],
              "type": "spu"
            },
            {
              "config": "{\"mode\":\"PHEU\",\"schema\":\"paillier\",\"key_size\":2048}",
              "name": "heu",
              "parties": [
                "com2023011620060497797",
                "com2023011620072311738"
              ],
              "type": "heu"
            }
          ],
          "parties": [
            "com2023011620060497797",
            "com2023011620072311738"
          ],
          "ray_fed_config": {
            "cross_silo_comm_backend": "brpc_link"
          }
        },
        "sf_datasource_config": {
          "com2023011620060497797": {
            "id": "default-data-source"
          },
          "com2023011620072311738": {
            "id": "default-data-source"
          }
        },
        "sf_input_ids": [
          "reefr2024092413473599050-qagbmwrn-node-35-output-0"
        ],
        "sf_node_eval_param": {
          "attr_paths": [
            "train_size",
            "test_size",
            "random_state",
            "shuffle"
          ],
          "attrs": [
            {
              "f": 0.75,
              "is_na": false
            },
            {
              "f": 0.25,
              "is_na": false
            },
            {
              "i64": 1024,
              "is_na": false
            },
            {
              "b": true,
              "is_na": false
            }
          ],
          "checkpoint_uri": "ckbeob-qagbmwrn-node-36-output-0",
          "domain": "data_prep",
          "name": "train_test_split",
          "version": "0.0.1"
        },
        "sf_output_ids": [
          "reefr2024092413473599050-qagbmwrn-node-36-output-0",
          "reefr2024092413473599050-qagbmwrn-node-36-output-1"
        ],
        "sf_output_uris": [
          "reefr2024092413473599050-qagbmwrn-node-36-output-0",
          "reefr2024092413473599050-qagbmwrn-node-36-output-1"
        ]
      }
    },
    {
      "task_id": "reefr2024092413473599050-qagbmwrn-node-37",
      "app_image": "secretflow-image",
      "alias": "reefr2024092413473599050-qagbmwrn-node-37",
      "priority": 100,
      "parties": [
        {
          "domain_id": "com2023011620060497797",
          "role": "partner"
        },
        {
          "domain_id": "com2023011620072311738",
          "role": "partner"
        }
      ],
      "dependencies": [
        "reefr2024092413473599050-qagbmwrn-node-36"
      ],
      "task_input_config": {
        "sf_cluster_desc": {
          "devices": [
            {
              "config": "{\"runtime_config\":{\"protocol\":\"SEMI2K\",\"field\":\"FM128\"},\"party_address\":{\"com2023011620060497797\":\"172.16.16.111\",\"com2023011620072311738\":\"172.16.16.116\"},\"link_desc\":{\"connect_retry_times\":60,\"connect_retry_interval_ms\":1000,\"brpc_channel_protocol\":\"http\",\"brpc_channel_connection_type\":\"pooled\",\"recv_timeout_ms\":1200000,\"http_timeout_ms\":1200000}}",
              "name": "spu",
              "parties": [
                "com2023011620060497797",
                "com2023011620072311738"
              ],
              "type": "spu"
            },
            {
              "config": "{\"mode\":\"PHEU\",\"schema\":\"paillier\",\"key_size\":2048}",
              "name": "heu",
              "parties": [
                "com2023011620060497797",
                "com2023011620072311738"
              ],
              "type": "heu"
            }
          ],
          "parties": [
            "com2023011620060497797",
            "com2023011620072311738"
          ],
          "ray_fed_config": {
            "cross_silo_comm_backend": "brpc_link"
          }
        },
        "sf_datasource_config": {
          "com2023011620060497797": {
            "id": "default-data-source"
          },
          "com2023011620072311738": {
            "id": "default-data-source"
          }
        },
        "sf_input_ids": [
          "reefr2024092413473599050-qagbmwrn-node-36-output-0"
        ],
        "sf_node_eval_param": {
          "attr_paths": [
            "input/in_ds/features",
            "rules"
          ],
          "attrs": [
            {
              "is_na": false,
              "ss": [
                "x1",
                "x2",
                "x3",
                "x4",
                "x5",
                "x6",
                "x7",
                "x8",
                "x9",
                "x10"
              ]
            },
            {
              "s": "{\"op\":\"STANDARDIZE\"}"
            }
          ],
          "checkpoint_uri": "ckbeob-qagbmwrn-node-37-output-0",
          "domain": "preprocessing",
          "name": "feature_calculate",
          "version": "0.0.1"
        },
        "sf_output_ids": [
          "reefr2024092413473599050-qagbmwrn-node-37-output-0",
          "reefr2024092413473599050-qagbmwrn-node-37-output-1"
        ],
        "sf_output_uris": [
          "reefr2024092413473599050-qagbmwrn-node-37-output-0",
          "reefr2024092413473599050-qagbmwrn-node-37-output-1"
        ]
      }
    },
    {
      "task_id": "reefr2024092413473599050-qagbmwrn-node-38",
      "app_image": "secretflow-image",
      "alias": "reefr2024092413473599050-qagbmwrn-node-38",
      "priority": 100,
      "parties": [
        {
          "domain_id": "com2023011620060497797",
          "role": "partner"
        },
        {
          "domain_id": "com2023011620072311738",
          "role": "partner"
        }
      ],
      "dependencies": [
        "reefr2024092413473599050-qagbmwrn-node-36"
      ],
      "task_input_config": {
        "sf_cluster_desc": {
          "devices": [
            {
              "config": "{\"runtime_config\":{\"protocol\":\"SEMI2K\",\"field\":\"FM128\"},\"party_address\":{\"com2023011620060497797\":\"172.16.16.111\",\"com2023011620072311738\":\"172.16.16.116\"},\"link_desc\":{\"connect_retry_times\":60,\"connect_retry_interval_ms\":1000,\"brpc_channel_protocol\":\"http\",\"brpc_channel_connection_type\":\"pooled\",\"recv_timeout_ms\":1200000,\"http_timeout_ms\":1200000}}",
              "name": "spu",
              "parties": [
                "com2023011620060497797",
                "com2023011620072311738"
              ],
              "type": "spu"
            },
            {
              "config": "{\"mode\":\"PHEU\",\"schema\":\"paillier\",\"key_size\":2048}",
              "name": "heu",
              "parties": [
                "com2023011620060497797",
                "com2023011620072311738"
              ],
              "type": "heu"
            }
          ],
          "parties": [
            "com2023011620060497797",
            "com2023011620072311738"
          ],
          "ray_fed_config": {
            "cross_silo_comm_backend": "brpc_link"
          }
        },
        "sf_datasource_config": {
          "com2023011620060497797": {
            "id": "default-data-source"
          },
          "com2023011620072311738": {
            "id": "default-data-source"
          }
        },
        "sf_input_ids": [
          "reefr2024092413473599050-qagbmwrn-node-36-output-1"
        ],
        "sf_node_eval_param": {
          "attr_paths": [
            "input/in_ds/features",
            "rules"
          ],
          "attrs": [
            {
              "is_na": false,
              "ss": [
                "x1",
                "x2",
                "x3",
                "x4",
                "x5",
                "x6",
                "x7",
                "x8",
                "x9",
                "x10"
              ]
            },
            {
              "s": "{\"op\":\"STANDARDIZE\"}"
            }
          ],
          "checkpoint_uri": "ckbeob-qagbmwrn-node-38-output-0",
          "domain": "preprocessing",
          "name": "feature_calculate",
          "version": "0.0.1"
        },
        "sf_output_ids": [
          "reefr2024092413473599050-qagbmwrn-node-38-output-0",
          "reefr2024092413473599050-qagbmwrn-node-38-output-1"
        ],
        "sf_output_uris": [
          "reefr2024092413473599050-qagbmwrn-node-38-output-0",
          "reefr2024092413473599050-qagbmwrn-node-38-output-1"
        ]
      }
    },
    {
      "task_id": "reefr2024092413473599050-qagbmwrn-node-39",
      "app_image": "secretflow-image",
      "alias": "reefr2024092413473599050-qagbmwrn-node-39",
      "priority": 100,
      "parties": [
        {
          "domain_id": "com2023011620060497797",
          "role": "partner"
        },
        {
          "domain_id": "com2023011620072311738",
          "role": "partner"
        }
      ],
      "dependencies": [
        "reefr2024092413473599050-qagbmwrn-node-37"
      ],
      "task_input_config": {
        "sf_cluster_desc": {
          "devices": [
            {
              "config": "{\"runtime_config\":{\"protocol\":\"SEMI2K\",\"field\":\"FM128\"},\"party_address\":{\"com2023011620060497797\":\"172.16.16.111\",\"com2023011620072311738\":\"172.16.16.116\"},\"link_desc\":{\"connect_retry_times\":60,\"connect_retry_interval_ms\":1000,\"brpc_channel_protocol\":\"http\",\"brpc_channel_connection_type\":\"pooled\",\"recv_timeout_ms\":1200000,\"http_timeout_ms\":1200000}}",
              "name": "spu",
              "parties": [
                "com2023011620060497797",
                "com2023011620072311738"
              ],
              "type": "spu"
            },
            {
              "config": "{\"mode\":\"PHEU\",\"schema\":\"paillier\",\"key_size\":2048}",
              "name": "heu",
              "parties": [
                "com2023011620060497797",
                "com2023011620072311738"
              ],
              "type": "heu"
            }
          ],
          "parties": [
            "com2023011620060497797",
            "com2023011620072311738"
          ],
          "ray_fed_config": {
            "cross_silo_comm_backend": "brpc_link"
          }
        },
        "sf_datasource_config": {
          "com2023011620060497797": {
            "id": "default-data-source"
          },
          "com2023011620072311738": {
            "id": "default-data-source"
          }
        },
        "sf_input_ids": [
          "reefr2024092413473599050-qagbmwrn-node-37-output-0"
        ],
        "sf_node_eval_param": {
          "attr_paths": [
            "input/train_dataset/feature_selects",
            "input/train_dataset/label",
            "epochs",
            "learning_rate",
            "batch_size",
            "sig_type",
            "reg_type",
            "penalty",
            "l2_norm",
            "eps",
            "report_weights"
          ],
          "attrs": [
            {
              "is_na": false,
              "ss": [
                "x1",
                "x2",
                "x3",
                "x4",
                "x5",
                "x6",
                "x7",
                "x8",
                "x9",
                "x10"
              ]
            },
            {
              "is_na": false,
              "ss": [
                "y"
              ]
            },
            {
              "i64": 10,
              "is_na": false
            },
            {
              "f": 0.1,
              "is_na": false
            },
            {
              "i64": 16,
              "is_na": false
            },
            {
              "is_na": false,
              "s": "t1"
            },
            {
              "is_na": false,
              "s": "linear"
            },
            {
              "is_na": false,
              "s": "None"
            },
            {
              "f": 0.5,
              "is_na": false
            },
            {
              "f": 0.001,
              "is_na": false
            },
            {
              "is_na": true
            }
          ],
          "checkpoint_uri": "ckbeob-qagbmwrn-node-39-output-0",
          "domain": "ml.train",
          "name": "ss_lgd_train",
          "version": "0.0.4"
        },
        "sf_output_ids": [
          "reefr2024092413473599050-qagbmwrn-node-39-output-0",
          "reefr2024092413473599050-qagbmwrn-node-39-output-1"
        ],
        "sf_output_uris": [
          "reefr2024092413473599050-qagbmwrn-node-39-output-0",
          "reefr2024092413473599050-qagbmwrn-node-39-output-1"
        ]
      }
    },
    {
      "task_id": "reefr2024092413473599050-qagbmwrn-node-40",
      "app_image": "secretflow-image",
      "alias": "reefr2024092413473599050-qagbmwrn-node-40",
      "priority": 100,
      "parties": [
        {
          "domain_id": "com2023011620060497797",
          "role": "partner"
        },
        {
          "domain_id": "com2023011620072311738",
          "role": "partner"
        }
      ],
      "dependencies": [
        "reefr2024092413473599050-qagbmwrn-node-39",
        "reefr2024092413473599050-qagbmwrn-node-38"
      ],
      "task_input_config": {
        "sf_cluster_desc": {
          "devices": [
            {
              "config": "{\"runtime_config\":{\"protocol\":\"SEMI2K\",\"field\":\"FM128\"},\"party_address\":{\"com2023011620060497797\":\"172.16.16.111\",\"com2023011620072311738\":\"172.16.16.116\"},\"link_desc\":{\"connect_retry_times\":60,\"connect_retry_interval_ms\":1000,\"brpc_channel_protocol\":\"http\",\"brpc_channel_connection_type\":\"pooled\",\"recv_timeout_ms\":1200000,\"http_timeout_ms\":1200000}}",
              "name": "spu",
              "parties": [
                "com2023011620060497797",
                "com2023011620072311738"
              ],
              "type": "spu"
            },
            {
              "config": "{\"mode\":\"PHEU\",\"schema\":\"paillier\",\"key_size\":2048}",
              "name": "heu",
              "parties": [
                "com2023011620060497797",
                "com2023011620072311738"
              ],
              "type": "heu"
            }
          ],
          "parties": [
            "com2023011620060497797",
            "com2023011620072311738"
          ],
          "ray_fed_config": {
            "cross_silo_comm_backend": "brpc_link"
          }
        },
        "sf_datasource_config": {
          "com2023011620060497797": {
            "id": "default-data-source"
          },
          "com2023011620072311738": {
            "id": "default-data-source"
          }
        },
        "sf_input_ids": [
          "reefr2024092413473599050-qagbmwrn-node-39-output-0",
          "reefr2024092413473599050-qagbmwrn-node-38-output-0"
        ],
        "sf_node_eval_param": {
          "attr_paths": [
            "input/feature_dataset/saved_features",
            "batch_size",
            "receiver",
            "pred_name",
            "save_ids",
            "save_label"
          ],
          "attrs": [
            {
              "is_na": true,
              "ss": []
            },
            {
              "i64": 16,
              "is_na": false
            },
            {
              "is_na": false,
              "ss": [
                "com2023011620060497797"
              ]
            },
            {
              "is_na": false,
              "s": "pred"
            },
            {
              "b": true,
              "is_na": false
            },
            {
              "is_na": true
            }
          ],
          "checkpoint_uri": "ckreefr2024092413473599050-qagbmwrn-node-40-output-0",
          "domain": "ml.predict",
          "name": "ss_lgd_predict",
          "version": "0.0.4"
        },
        "sf_output_ids": [
          "reefr2024092413473599050-qagbmwrn-node-40-output-0"
        ],
        "sf_output_uris": [
          "reefr2024092413473599050-qagbmwrn-node-40-output-0"
        ]
      }
    }
  ]
}

What happend and What you expected to happen.

你好！
我们使用kuscia开启了一个任务，但是出现了以下报错：
"err_msg": "0/1 nodes are available: 1 node(s) had untolerated taint {node.kubernetes.io/disk-pressure: }. preemption: 0/1 nodes are available: 1 Preemption is not helpful for scheduling., reject the pod reefr2024092414135423423-qagbmwrn-node-35-partner-0 even after PostFilter.;",
看报错日志显示是磁盘空间不足，我们检查了机器的磁盘空间仅有34G可用；
我们定位了kuscia容器内主要占用空间的目录，如下：

[root@idata-kuscia-autonomy-com2023011620060497797 root]# ls
bin                               io.containerd.metadata.v1.bolt  io.containerd.snapshotter.v1.aufs            io.containerd.snapshotter.v1.native     lib
io.containerd.content.v1.content  io.containerd.runtime.v1.linux  io.containerd.snapshotter.v1.btrfs           io.containerd.snapshotter.v1.overlayfs  tmpmounts
io.containerd.grpc.v1.cri         io.containerd.runtime.v2.task   io.containerd.snapshotter.v1.fuse-overlayfs  io.containerd.snapshotter.v1.stargz
[root@idata-kuscia-autonomy-com2023011620060497797 root]# du -h --max-depth=1
8.0K    ./io.containerd.snapshotter.v1.native
4.0K    ./bin
100G    ./io.containerd.snapshotter.v1.overlayfs
540K    ./io.containerd.grpc.v1.cri
52K     ./io.containerd.runtime.v2.task
4.0K    ./lib
8.0K    ./io.containerd.snapshotter.v1.fuse-overlayfs
8.0K    ./io.containerd.snapshotter.v1.aufs
4.0K    ./io.containerd.snapshotter.v1.btrfs
4.0K    ./io.containerd.runtime.v1.linux
71G     ./io.containerd.content.v1.content
5.4M    ./io.containerd.metadata.v1.bolt
4.0K    ./tmpmounts
32K     ./io.containerd.snapshotter.v1.stargz
171G    .
[root@idata-kuscia-autonomy-com2023011620060497797 root]# pwd
/home/kuscia/containerd/root

Kuscia log output.

如上
JiaIcecream commented 6 days ago

请问，大量占用空间的文件是什么，能不能删除；谢谢

wangzul commented 6 days ago

请问，大量占用空间的文件是什么，能不能删除；谢谢

这些文件和目录主要与containerd这个容器运行时相关的数据和配置有关不建议删除，可以通过docker system prune 回收磁盘空间并移除不再使用的资源。

docker system prune作用

  1. 移除未被使用的镜像（ dangling images ）：这些通常是构建过程中产生的中间镜像，或是由于标签被其他镜像覆盖而未被标记的镜像。
  2. 删除停止的容器：所有状态为“已退出（exited）”的容器会被删除。
  3. 清理网络：未被使用的网络会被删除。默认网络（如 bridge, host, none 等）不会被删除。
  4. 删除未被使用的数据卷：未被任何容器引用的数据卷会被删除。
  5. 移除构建缓存：Docker会清理镜像构建过程中产生的临时文件和缓存。