{
  "id": 105466,
  "title": "Saving submission to_csv or to_pickle not working anymore",
  "url": "/competitions/champs-scalar-coupling/discussion/105466",
  "author_name": "",
  "post_date": "2019-08-23T10:47:32.568062500Z",
  "votes": null,
  "comment_count": 6,
  "views": 0,
  "content": "<p>Does this issue sound familiar to anyone? Whenever I try to save my submission or even just the submission sample file, the disk memory goes up from 260 MB to 4.9 GB and the kernel crashes.\nThis happens with csv and pkl even though the submission file size is only around 500 KB. Zipping the file doesn't help. Any ideas why this happens?</p>",
  "messages": [
    {
      "id": "606225",
      "postDate": "08/23/2019 10:47:32",
      "content": "<p>Does this issue sound familiar to anyone? Whenever I try to save my submission or even just the submission sample file, the disk memory goes up from 260 MB to 4.9 GB and the kernel crashes.\nThis happens with csv and pkl even though the submission file size is only around 500 KB. Zipping the file doesn't help. Any ideas why this happens?</p>",
      "rawMarkdown": "Does this issue sound familiar to anyone? Whenever I try to save my submission or even just the submission sample file, the disk memory goes up from 260 MB to 4.9 GB and the kernel crashes.\nThis happens with csv and pkl even though the submission file size is only around 500 KB. Zipping the file doesn't help. Any ideas why this happens?",
      "votes": null
    },
    {
      "id": "606409",
      "postDate": "08/23/2019 14:40:34",
      "content": "<p>Update: I have no idea why, but the issue seems to have to do with openbabel. Whenever I am importing openbabel to a kernel and later try to save a submission, the kernel is dying. When I don't import openbabel, I can save my submission file. </p>",
      "rawMarkdown": "Update: I have no idea why, but the issue seems to have to do with openbabel. Whenever I am importing openbabel to a kernel and later try to save a submission, the kernel is dying. When I don't import openbabel, I can save my submission file.",
      "votes": null
    },
    {
      "id": "606456",
      "postDate": "08/23/2019 15:43:31",
      "content": "<p>I had the same in the kernels where I used OpenBabel library. It appeared unexpectedly and I have no idea about the reason. I tried to understand the reason, found the solution by chance and left my thoughts about the reason. So my solution was to add the following code into the first cell (before installing of OpenBabel):\n<code>\nimport pandas as pd\ndf_test = pd.DataFrame({'a':[1,2,3],'b':[4,5,6]})\ndf_test.to_csv('test.csv')\n</code></p>",
      "rawMarkdown": "I had the same in the kernels where I used OpenBabel library. It appeared unexpectedly and I have no idea about the reason. I tried to understand the reason, found the solution by chance and left my thoughts about the reason. So my solution was to add the following code into the first cell (before installing of OpenBabel):\n```\nimport pandas as pd\ndf_test = pd.DataFrame({'a':[1,2,3],'b':[4,5,6]})\ndf_test.to_csv('test.csv')\n```",
      "votes": null
    },
    {
      "id": "606487",
      "postDate": "08/23/2019 16:49:17",
      "content": "<p>Thanks a lot! This seems to work. I get a different error now but the kernel runs through an generates output.</p>",
      "rawMarkdown": "Thanks a lot! This seems to work. I get a different error now but the kernel runs through an generates output.",
      "votes": null
    },
    {
      "id": "607207",
      "postDate": "08/24/2019 19:48:23",
      "content": "<p>Had similar issue last week.  Put in support request which of course went with zero response.  But looking at the kernels were I had the problem - they all were using Open Babel.</p>",
      "rawMarkdown": "Had similar issue last week.  Put in support request which of course went with zero response.  But looking at the kernels were I had the problem - they all were using Open Babel.",
      "votes": null
    },
    {
      "id": "607988",
      "postDate": "08/26/2019 07:19:08",
      "content": "<p>Also had this issue last week in the kernels where I used OB.</p>",
      "rawMarkdown": "Also had this issue last week in the kernels where I used OB.",
      "votes": null
    },
    {
      "id": "610360",
      "postDate": "08/28/2019 17:36:09",
      "content": "<p>use to_hdf</p>",
      "rawMarkdown": "use to_hdf",
      "votes": null
    }
  ],
  "comments": [
    {
      "id": 606409,
      "author_name": "schlers",
      "author_url": "",
      "post_date": "08/23/2019 14:40:34",
      "content": "<p>Update: I have no idea why, but the issue seems to have to do with openbabel. Whenever I am importing openbabel to a kernel and later try to save a submission, the kernel is dying. When I don't import openbabel, I can save my submission file. </p>",
      "votes": null,
      "replies": []
    },
    {
      "id": 606456,
      "author_name": "silantev",
      "author_url": "",
      "post_date": "08/23/2019 15:43:31",
      "content": "<p>I had the same in the kernels where I used OpenBabel library. It appeared unexpectedly and I have no idea about the reason. I tried to understand the reason, found the solution by chance and left my thoughts about the reason. So my solution was to add the following code into the first cell (before installing of OpenBabel):\n<code>\nimport pandas as pd\ndf_test = pd.DataFrame({'a':[1,2,3],'b':[4,5,6]})\ndf_test.to_csv('test.csv')\n</code></p>",
      "votes": null,
      "replies": [
        {
          "id": 606487,
          "author_name": "schlers",
          "author_url": "",
          "post_date": "08/23/2019 16:49:17",
          "content": "<p>Thanks a lot! This seems to work. I get a different error now but the kernel runs through an generates output.</p>",
          "votes": null,
          "replies": []
        }
      ]
    },
    {
      "id": 607207,
      "author_name": "pcjimmmy",
      "author_url": "",
      "post_date": "08/24/2019 19:48:23",
      "content": "<p>Had similar issue last week.  Put in support request which of course went with zero response.  But looking at the kernels were I had the problem - they all were using Open Babel.</p>",
      "votes": null,
      "replies": []
    },
    {
      "id": 607988,
      "author_name": "stanislavblinov",
      "author_url": "",
      "post_date": "08/26/2019 07:19:08",
      "content": "<p>Also had this issue last week in the kernels where I used OB.</p>",
      "votes": null,
      "replies": []
    },
    {
      "id": 610360,
      "author_name": "firstbloody",
      "author_url": "",
      "post_date": "08/28/2019 17:36:09",
      "content": "<p>use to_hdf</p>",
      "votes": null,
      "replies": []
    }
  ],
  "raw_markdown_by_id": {
    "606225": "Does this issue sound familiar to anyone? Whenever I try to save my submission or even just the submission sample file, the disk memory goes up from 260 MB to 4.9 GB and the kernel crashes.\nThis happens with csv and pkl even though the submission file size is only around 500 KB. Zipping the file doesn't help. Any ideas why this happens?",
    "606409": "Update: I have no idea why, but the issue seems to have to do with openbabel. Whenever I am importing openbabel to a kernel and later try to save a submission, the kernel is dying. When I don't import openbabel, I can save my submission file.",
    "606456": "I had the same in the kernels where I used OpenBabel library. It appeared unexpectedly and I have no idea about the reason. I tried to understand the reason, found the solution by chance and left my thoughts about the reason. So my solution was to add the following code into the first cell (before installing of OpenBabel):\n```\nimport pandas as pd\ndf_test = pd.DataFrame({'a':[1,2,3],'b':[4,5,6]})\ndf_test.to_csv('test.csv')\n```",
    "606487": "Thanks a lot! This seems to work. I get a different error now but the kernel runs through an generates output.",
    "607207": "Had similar issue last week.  Put in support request which of course went with zero response.  But looking at the kernels were I had the problem - they all were using Open Babel.",
    "607988": "Also had this issue last week in the kernels where I used OB.",
    "610360": "use to_hdf"
  },
  "source": "meta"
}