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search.json

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     "href": "submission/preparation-guide.html",
     "title": "Preparation guide",
     "section": "",
-    "text": "BigPicture aims to support submissions of digital pathology slides resulting from biomedical research projects. You can read more about data types and file formats on the BigPicture dataset website.\nBefore you submit your data, please make sure\n\nThe root folder of the submission should actually be the dataset folder which includes the images folder and the metadata folder. See the example of structure folder below:\n\n    ├── Dataset_whatever\n    |   ├── metadata\n    |   |   ├── images.xml\n    |   |   ├── dataset.xml\n    |   |   ├── dac.xml\n    |   ├── IMG_001\n    |   |   ├── image1.dcm\n    |   |   ├── image2.dcm\n    |   |   ├── image3.dcm\n    |   ├── IMG_002\n    |   |   ├── image1.dcm\n    |   |   ├── image2.dcm\n    |   |   ├── image3.dcm\n    |   ├── IMG_003\n    |   |   ├── image1.dcm\n    |   |   ├── image2.dcm\n    |   |   ├── image3.dcm\n\nAll the files should be encrypted with crypt4gh and the extensions must be c4gh, e.g: images.xml.c4gh, image1.dcm.c4gh etc\nThe metadata is stored in a folder called metadata under the root of the submission folder.\nThe only files that should exist in the metadata folder are the following: dac.xml, dataset.xml, images.xml, observations.xml, observers.xml, policy.xml, samples.xml and study.xml.\nThe file images.xml.c4gh should include the full path of each dicom image and includes also the checksums of both encrypted and unencrypted files, e.g:\n\n    <FILES>\n        <FILE filename=\"IMG_001/image1.dcm\" checksum_method=\"SHA256\" checksum=\"<encrypted_checksum>\" unencrypted_checksum=\"<unencrypted_checksum>\" filetype=\"dcm\"/>\n        <FILE filename=\"IMG_001/image2.dcm\" checksum_method=\"SHA256\" checksum=\"<encrypted_checksum>\" unencrypted_checksum=\"<unencrypted_checksum>\" filetype=\"dcm\"/>\n        <FILE filename=\"IMG_001/image3.dcm\" checksum_method=\"SHA256\" checksum=\"<encrypted_checksum>\" unencrypted_checksum=\"<unencrypted_checksum>\" filetype=\"dcm\"/>\n    </FILES>"
+    "text": "Before you submit your data, please make sure\n\nThe root folder of the submission should actually be the dataset folder which includes the images folder and the metadata folder. See the example of structure folder below:\n\n    ├── Dataset_whatever\n    |   ├── metadata\n    |   |   ├── images.xml\n    |   |   ├── dataset.xml\n    |   |   ├── dac.xml\n    |   ├── IMG_001\n    |   |   ├── image1.dcm\n    |   |   ├── image2.dcm\n    |   |   ├── image3.dcm\n    |   ├── IMG_002\n    |   |   ├── image1.dcm\n    |   |   ├── image2.dcm\n    |   |   ├── image3.dcm\n    |   ├── IMG_003\n    |   |   ├── image1.dcm\n    |   |   ├── image2.dcm\n    |   |   ├── image3.dcm\n\nAll the files should be encrypted with crypt4gh and the extensions must be c4gh, e.g: images.xml.c4gh, image1.dcm.c4gh etc\nThe metadata is stored in a folder called metadata under the root of the submission folder.\nThe only files that should exist in the metadata folder are the following: dac.xml, dataset.xml, images.xml, observations.xml, observers.xml, policy.xml, samples.xml and study.xml.\nThe file images.xml.c4gh should include the full path of each dicom image and includes also the checksums of both encrypted and unencrypted files, e.g:\n\n    <FILES>\n        <FILE filename=\"IMG_001/image1.dcm\" checksum_method=\"SHA256\" checksum=\"<encrypted_checksum>\" unencrypted_checksum=\"<unencrypted_checksum>\" filetype=\"dcm\"/>\n        <FILE filename=\"IMG_001/image2.dcm\" checksum_method=\"SHA256\" checksum=\"<encrypted_checksum>\" unencrypted_checksum=\"<unencrypted_checksum>\" filetype=\"dcm\"/>\n        <FILE filename=\"IMG_001/image3.dcm\" checksum_method=\"SHA256\" checksum=\"<encrypted_checksum>\" unencrypted_checksum=\"<unencrypted_checksum>\" filetype=\"dcm\"/>\n    </FILES>"
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     "objectID": "submission/index.html",

submission/preparation-guide.html

@@ -172,7 +172,6 @@ <h1 class="title d-none d-lg-block">Preparation guide</h1>
 
 </header>
 
-<p>BigPicture aims to support submissions of digital pathology slides resulting from biomedical research projects. You can read more about data types and file formats on the <a href="https://nbisweden.github.io/datasets.bp.nbis.se/">BigPicture dataset website</a>.</p>
 <p>Before you submit your data, please make sure</p>
 <ol type="1">
 <li>The root folder of the submission should actually be the dataset folder which includes the images folder and the metadata folder. See the example of structure folder below:</li>