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Download file from human cell atlas data portal

Good morning,

I wonder anyone used Human cell atlas data portal before? I used their curl link to download fastq files they provided, but I only got two r2.gz, and one l1.gz and one r1.gz files. I want to ask anyone know any better way to download the data from this data portal?

fastq
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updated by GenoMax GenoMax • written by sandy • sandy

Can you provide some detail as to where you are downloading the data from exactly (link if possible)?

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written by GenoMax GenoMax

1 answer

Looks like there are 66 files (840 GB of data) according to this page: https://data.humancellatlas.org/explore/projects/abe1a013-af7a-45ed-8c26-f3793c24a1f4/get-curl-command

Did you use the curl command that is generated by this page?

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written by GenoMax GenoMax

Yes, I did. I used the curl link the web generated for me.

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written by sandy • sandy

I got more than one file (did not complete the download) with that curl command:

  0     0    0     0    0     0      0      0 --:--:--  0:00:02 --:--:--     0
100 39.9G  100 39.9G    0     0   234M      0  0:02:54  0:02:54 --:--:--  257M
Downloading to: eab0aeb5-593d-41b3-b96c-66d13ada0991/4834STDY7002886_S1_L001_R2_001.fastq.gz

  0     0    0     0    0     0      0      0 --:--:--  0:00:03 --:--:--     0
100 7814M  100 7814M    0     0   203M      0  0:00:38  0:00:38 --:--:--  190M
Downloading to: d4f75bfc-5813-4ca3-a04a-3a10c8997585/FCAImmP7555849_S1_L001_R1_001.fastq.gz

  0     0    0     0    0     0      0      0 --:--:--  0:00:01 --:--:--     0
100 2555M  100 2555M    0     0   194M      0  0:00:13  0:00:13 --:--:--  238M
Downloading to: 3cca8fb8-605c-4441-90a7-0e0f022b57da/FCAImmP7528293_S1_L001_I1_001.fastq.gz

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 2601M  100 2601M    0     0   205M      0  0:00:12  0:00:12 --:--:--  247M
Downloading to: 668f669a-e618-44bc-bf0e-53ab1ca3de1f/FCAImmP7462243_S1_L001_I1_001.fastq.gz

  0     0    0     0    0     0      0      0 --:--:--  0:00:01 --:--:--     0
100 1917M  100 1917M    0     0   169M      0  0:00:11  0:00:11 --:--:--  208M
Downloading to: d0be5601-1df7-4d0a-b324-62de3d7fd460/CZIKidney7587407_S1_L001_R2_001.fastq.gz

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 14.3G  100 14.3G    0     0   223M      0  0:01:05  0:01:05 --:--:--  229M
Downloading to: addd4185-1c5a-4dbd-bd1a-4a645a3a7099/CZIKidney7632801_S1_L001_R2_001.fastq.gz

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100  565M  100  565M    0     0   162M      0  0:00:03  0:00:03 --:--:--  265M
Downloading to: d0be5601-1df7-4d0a-b324-62de3d7fd460/CZIKidney7587407_S1_L001_R1_001.fastq.gz

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 3750M  100 3750M    0     0   240M      0  0:00:15  0:00:15 --:--:--  265M
Downloading to: 256b91c8-2445-46be-8a82-f3801fed8f50/CZIKidney7632802_S1_L001_R1_001.fastq.gz
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written by GenoMax GenoMax

Thank you! Then I did something wrong I think. I really appreciate your help. Thanks again!

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written by sandy • sandy

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