{"_id":"5637e164f7e3990d007b2c41","version":{"_id":"55faf11ba62ba1170021a9aa","project":"55faf11ba62ba1170021a9a7","__v":37,"createdAt":"2015-09-17T16:58:03.490Z","releaseDate":"2015-09-17T16:58:03.490Z","categories":["55faf11ca62ba1170021a9ab","55faf8f4d0e22017005b8272","55faf91aa62ba1170021a9b5","55faf929a8a7770d00c2c0bd","55faf932a8a7770d00c2c0bf","55faf94b17b9d00d00969f47","55faf958d0e22017005b8274","55faf95fa8a7770d00c2c0c0","55faf96917b9d00d00969f48","55faf970a8a7770d00c2c0c1","55faf98c825d5f19001fa3a6","55faf99aa62ba1170021a9b8","55faf99fa62ba1170021a9b9","55faf9aa17b9d00d00969f49","55faf9b6a8a7770d00c2c0c3","55faf9bda62ba1170021a9ba","5604570090ee490d00440551","5637e8b2fbe1c50d008cb078","5649bb624fa1460d00780add","5671974d1b6b730d008b4823","5671979d60c8e70d006c9760","568e8eef70ca1f0d0035808e","56d0a2081ecc471500f1795e","56d4a0adde40c70b00823ea3","56d96b03dd90610b00270849","56fbb83d8f21c817002af880","573c811bee2b3b2200422be1","576bc92afb62dd20001cda85","5771811e27a5c20e00030dcd","5785191af3a10c0e009b75b0","57bdf84d5d48411900cd8dc0","57ff5c5dc135231700aed806","5804caf792398f0f00e77521","58458b4fba4f1c0f009692bb","586d3c287c6b5b2300c05055","58ef66d88646742f009a0216","58f5d52d7891630f00fe4e77"],"is_deprecated":false,"is_hidden":false,"is_beta":true,"is_stable":true,"codename":"","version_clean":"1.0.0","version":"1.0"},"category":{"_id":"55faf932a8a7770d00c2c0bf","pages":["56268a69b1c2630d00b112b0","56268a85c2781f0d00364bbc","56268a92c2781f0d00364bbe","5637e0a0cfaa870d00cdeb6a","5637e0c3fbe1c50d008cb06a","5637e164f7e3990d007b2c41"],"version":"55faf11ba62ba1170021a9aa","__v":6,"project":"55faf11ba62ba1170021a9a7","sync":{"url":"","isSync":false},"reference":false,"createdAt":"2015-09-17T17:32:34.286Z","from_sync":false,"order":8,"slug":"bring-your-private-data","title":"BRING YOUR PRIVATE DATA"},"parentDoc":null,"user":"554340dfb7f4540d00fcef1d","__v":14,"project":"55faf11ba62ba1170021a9a7","updates":[],"next":{"pages":[],"description":""},"createdAt":"2015-11-02T22:19:16.783Z","link_external":false,"link_url":"","githubsync":"","sync_unique":"","hidden":false,"api":{"results":{"codes":[]},"settings":"","auth":"required","params":[],"url":""},"isReference":false,"order":1,"body":"The CGC Uploader is a tool which can be used to quickly and securely upload your private data from a personal computer or hard drive to the CGC. The files can be added to any of your existing projects.\n\n##Install the CGC Uploader\n\nInstall the CGC Uploader by downloading the appropriate installer. Note the following links will download and open the installer.\n\n  * [Windows - 32 bit](https://cgc.sbgenomics.com/uploader/CGC_Uploader32.exe)\n  * [Windows - 64 bit ](https://cgc.sbgenomics.com/uploader/CGC_Uploader64.exe)\n  * [Mac](https://cgc.sbgenomics.com/uploader/CGC_Uploader.dmg)\n  * [Linux - 32 bit](https://cgc.sbgenomics.com/uploader/CGC_Uploader32.sh)\n  * [Linux - 64 bit](https://cgc.sbgenomics.com/uploader/CGC_Uploader64.sh)\n[block:callout]\n{\n  \"type\": \"info\",\n  \"body\": \"Your operating system will be automatically detected and the relevant version of the Desktop Uploader will be available for download. In case you need a version for a different operating system, click on a link below the button.\"\n}\n[/block]\n\n[block:image]\n{\n  \"images\": [\n    {\n      \"image\": [\n        \"https://files.readme.io/985d6ce-cgc-uploader-1.jpg\",\n        \"cgc-uploader-1.jpg\",\n        1116,\n        638,\n        \"#ececed\"\n      ],\n      \"border\": true\n    }\n  ]\n}\n[/block]\nOnce the installation package has been downloaded, click on it to install the **Desktop Uploader**.\n[block:image]\n{\n  \"images\": [\n    {\n      \"image\": [\n        \"https://files.readme.io/0392e3a-install-cgc-uploader.jpg\",\n        \"install-cgc-uploader.jpg\",\n        373,\n        274,\n        \"#e0e3e8\"\n      ],\n      \"border\": true\n    }\n  ]\n}\n[/block]\n##Upload files\nTo upload files using the CGC Uploader:\n\n1. Start the CGC Uploader.\n2. To login, enter your username and password or your [authentication token ](get-your-authentication-token)and click **Login**.\n[block:callout]\n{\n  \"type\": \"warning\",\n  \"body\": \"you can only <a href=\\\"https://gds.nih.gov/pdf/Trusted_Partner_Checklist.pdf\\\" target=\\\"blank\\\">login to the CGC Uploader using your authentication token</a>.\",\n  \"title\": \"If you log in to the CGC using eRA Commons credentials...\"\n}\n[/block]\n3. Click **Upload** in the toolbar.\n4. Navigate to the files or folders you want to upload. Select as many as you want to upload.\n5. Click **Upload**. A pop-up will appear, asking you to select the destination project for your files.\n6. Select the destination project for your files from the drop-down menu, as shown below.\n[block:image]\n{\n  \"images\": [\n    {\n      \"image\": [\n        \"https://files.readme.io/4b97c7f-select-project-cgc-uploader-3.png\",\n        \"select-project-cgc-uploader-3.png\",\n        694,\n        496,\n        \"#e9e9e9\"\n      ]\n    }\n  ]\n}\n[/block]\n7. (Optional) Add tags to your file by typing strings into the box below Add tags to the files. You can separate tags by pressing the return key or by inserting a comma, as shown below.\n[block:callout]\n{\n  \"type\": \"info\",\n  \"title\": \"\",\n  \"body\": \"All tags which are already in the selected project will be autosuggested in the drop-down menu, as shown below. You can **delete a tag** by selecting the red **x** in the right-hand side of each tag.\"\n}\n[/block]\n\n[block:image]\n{\n  \"images\": [\n    {\n      \"image\": [\n        \"https://files.readme.io/y0259mQSiWVbUTFVb92G_Screen%20Shot%202016-06-14%20at%2011.10.34%20AM.jpeg\",\n        \"Screen Shot 2016-06-14 at 11.10.34 AM.jpeg\",\n        \"738\",\n        \"542\",\n        \"#395163\",\n        \"\"\n      ]\n    }\n  ]\n}\n[/block]\n8. Click **Upload**.\n\nAs you upload, you can see the following information on the uploader:\n\n  * **Name**: the name of the file as well as the tags in case you've added them to your file(s). If you're uploading more than one file, the number of files will display instead of the file name.\n  * **Destination**: the name of the project your file(s) will be uploaded to.\n  * **Size**: the total size of your upload.\n  * **Progress**: the percentage of files that are uploaded.\n  * **Speed**: current upload speed (mb/s).\n  * **Status** of your upload, which can be:\n   * **Initializing**\n   * in case of an ongoing upload, this will show the remaining time until the upload is complete\n   * **Completed**\n   * **Paused**\n\n[block:callout]\n{\n  \"type\": \"info\",\n  \"body\": \"Multiple-file uploads may take a while to initialize.\",\n  \"title\": \"Upload time\"\n}\n[/block]\n\n[block:callout]\n{\n  \"type\": \"success\",\n  \"title\": \"Tagging files\",\n  \"body\": \"You can also tag files as you upload them [via the command line](upload-via-the-command-line) or [from an FTP or HTTP(S) server](upload-from-an-ftp-server).\\n\\nLearn more about [tagging your files](tag-your-files) in general on the CGC and how tags are beneficial to organizing your data.\"\n}\n[/block]\n##Upload files using a manifest file\n\nYou can upload multiple files by using a manifest file. The manifest specifies the files that should be uploaded as well as the accompanying metadata. To upload files:\n\n1. Start the CGC Uploader.\n2. Log in by entering your CGC username and password or your [authentication token](doc:get-your-authentication-token) and click **Login**.\n3. Click **Upload via Manifest**.\n[block:image]\n{\n  \"images\": [\n    {\n      \"image\": [\n        \"https://files.readme.io/2b64f12-upload-via-manifest-1.jpg\",\n        \"upload-via-manifest-1.jpg\",\n        857,\n        526,\n        \"#e2e0e2\"\n      ],\n      \"border\": true\n    }\n  ]\n}\n[/block]\n4.Choose the manifest file on your computer (learn more about the [Format of a manifest file](doc:format-of-a-manifest-file)).\n5. Click **Parse Manifest**.\nThe manifest file will be validated and the summary dialog will be displayed.\n[block:image]\n{\n  \"images\": [\n    {\n      \"image\": [\n        \"https://files.readme.io/68370ca-upload-via-manifest-2.jpg\",\n        \"upload-via-manifest-2.jpg\",\n        390,\n        379,\n        \"#eae9ea\"\n      ],\n      \"border\": true\n    }\n  ]\n}\n[/block]\n6. (Optional) Unselect metadata fields you want to exclude.\n7. (Optional) Select **Upload manifest file** to also upload the manifest file to CGC.\n8. Click **Upload**.\n9. Choose the target project.\n10. (Optional) Tag your files.\n11. Click **Upload** again to begin uploading the files.\n      The CGC Uploader will begin uploading the files. Once all files have been uploaded, you will see a Completed status on the right.","excerpt":"Use the CGC uploader for data that is stored on your local computer.","slug":"upload-via-the-cgc-uploader","type":"basic","title":"Upload via the CGC Uploader"}

Upload via the CGC Uploader

Use the CGC uploader for data that is stored on your local computer.

The CGC Uploader is a tool which can be used to quickly and securely upload your private data from a personal computer or hard drive to the CGC. The files can be added to any of your existing projects. ##Install the CGC Uploader Install the CGC Uploader by downloading the appropriate installer. Note the following links will download and open the installer. * [Windows - 32 bit](https://cgc.sbgenomics.com/uploader/CGC_Uploader32.exe) * [Windows - 64 bit ](https://cgc.sbgenomics.com/uploader/CGC_Uploader64.exe) * [Mac](https://cgc.sbgenomics.com/uploader/CGC_Uploader.dmg) * [Linux - 32 bit](https://cgc.sbgenomics.com/uploader/CGC_Uploader32.sh) * [Linux - 64 bit](https://cgc.sbgenomics.com/uploader/CGC_Uploader64.sh) [block:callout] { "type": "info", "body": "Your operating system will be automatically detected and the relevant version of the Desktop Uploader will be available for download. In case you need a version for a different operating system, click on a link below the button." } [/block] [block:image] { "images": [ { "image": [ "https://files.readme.io/985d6ce-cgc-uploader-1.jpg", "cgc-uploader-1.jpg", 1116, 638, "#ececed" ], "border": true } ] } [/block] Once the installation package has been downloaded, click on it to install the **Desktop Uploader**. [block:image] { "images": [ { "image": [ "https://files.readme.io/0392e3a-install-cgc-uploader.jpg", "install-cgc-uploader.jpg", 373, 274, "#e0e3e8" ], "border": true } ] } [/block] ##Upload files To upload files using the CGC Uploader: 1. Start the CGC Uploader. 2. To login, enter your username and password or your [authentication token ](get-your-authentication-token)and click **Login**. [block:callout] { "type": "warning", "body": "you can only <a href=\"https://gds.nih.gov/pdf/Trusted_Partner_Checklist.pdf\" target=\"blank\">login to the CGC Uploader using your authentication token</a>.", "title": "If you log in to the CGC using eRA Commons credentials..." } [/block] 3. Click **Upload** in the toolbar. 4. Navigate to the files or folders you want to upload. Select as many as you want to upload. 5. Click **Upload**. A pop-up will appear, asking you to select the destination project for your files. 6. Select the destination project for your files from the drop-down menu, as shown below. [block:image] { "images": [ { "image": [ "https://files.readme.io/4b97c7f-select-project-cgc-uploader-3.png", "select-project-cgc-uploader-3.png", 694, 496, "#e9e9e9" ] } ] } [/block] 7. (Optional) Add tags to your file by typing strings into the box below Add tags to the files. You can separate tags by pressing the return key or by inserting a comma, as shown below. [block:callout] { "type": "info", "title": "", "body": "All tags which are already in the selected project will be autosuggested in the drop-down menu, as shown below. You can **delete a tag** by selecting the red **x** in the right-hand side of each tag." } [/block] [block:image] { "images": [ { "image": [ "https://files.readme.io/y0259mQSiWVbUTFVb92G_Screen%20Shot%202016-06-14%20at%2011.10.34%20AM.jpeg", "Screen Shot 2016-06-14 at 11.10.34 AM.jpeg", "738", "542", "#395163", "" ] } ] } [/block] 8. Click **Upload**. As you upload, you can see the following information on the uploader: * **Name**: the name of the file as well as the tags in case you've added them to your file(s). If you're uploading more than one file, the number of files will display instead of the file name. * **Destination**: the name of the project your file(s) will be uploaded to. * **Size**: the total size of your upload. * **Progress**: the percentage of files that are uploaded. * **Speed**: current upload speed (mb/s). * **Status** of your upload, which can be: * **Initializing** * in case of an ongoing upload, this will show the remaining time until the upload is complete * **Completed** * **Paused** [block:callout] { "type": "info", "body": "Multiple-file uploads may take a while to initialize.", "title": "Upload time" } [/block] [block:callout] { "type": "success", "title": "Tagging files", "body": "You can also tag files as you upload them [via the command line](upload-via-the-command-line) or [from an FTP or HTTP(S) server](upload-from-an-ftp-server).\n\nLearn more about [tagging your files](tag-your-files) in general on the CGC and how tags are beneficial to organizing your data." } [/block] ##Upload files using a manifest file You can upload multiple files by using a manifest file. The manifest specifies the files that should be uploaded as well as the accompanying metadata. To upload files: 1. Start the CGC Uploader. 2. Log in by entering your CGC username and password or your [authentication token](doc:get-your-authentication-token) and click **Login**. 3. Click **Upload via Manifest**. [block:image] { "images": [ { "image": [ "https://files.readme.io/2b64f12-upload-via-manifest-1.jpg", "upload-via-manifest-1.jpg", 857, 526, "#e2e0e2" ], "border": true } ] } [/block] 4.Choose the manifest file on your computer (learn more about the [Format of a manifest file](doc:format-of-a-manifest-file)). 5. Click **Parse Manifest**. The manifest file will be validated and the summary dialog will be displayed. [block:image] { "images": [ { "image": [ "https://files.readme.io/68370ca-upload-via-manifest-2.jpg", "upload-via-manifest-2.jpg", 390, 379, "#eae9ea" ], "border": true } ] } [/block] 6. (Optional) Unselect metadata fields you want to exclude. 7. (Optional) Select **Upload manifest file** to also upload the manifest file to CGC. 8. Click **Upload**. 9. Choose the target project. 10. (Optional) Tag your files. 11. Click **Upload** again to begin uploading the files. The CGC Uploader will begin uploading the files. Once all files have been uploaded, you will see a Completed status on the right.