Question

Error in GDC tool kit

0

Entering edit mode

3.5 years ago

sinumolg ▴ 10

I am trying to fetch the clinical information data (TSV file format) of >1000 files from TCGA. I have used GDC-client tool kit But it is showing the below error.

/tmp/_MEIkaerqR/cryptography/hazmat/primitives/constant_time.py:26: CryptographyDeprecationWarning: Support for your Python version is deprecated. The next version of cryptography will remove support. Please upgrade to a 2.7.x release that supports hmac.compare_digest as soon as possible.

I have updated the python version too.My OS is Ubuntu 20.04.1 LTS. Please help me to solve this issue. Is there any other possible way to download the multiple file from TCGA rather than GDC-client tool kit?

software error next-gen gene tcga • 758 views

ADD COMMENT • link updated 3.5 years ago by Biostar 20 • written 3.5 years ago by sinumolg ▴ 10

score 1 · Answer 1 · 2020-11-07

1

Entering edit mode

3.5 years ago

Kevin Blighe 87k

Please report at the GDC Help Desk: https://gdc.cancer.gov/support

ADD COMMENT • link 3.5 years ago by Kevin Blighe 87k

0

Entering edit mode

Already reported. but didnt get their response

ADD REPLY • link 3.5 years ago by sinumolg ▴ 10

0

Entering edit mode

I see - thanks. What is the output of python --version ?

ADD REPLY • link 3.5 years ago by Kevin Blighe 87k

0

Entering edit mode

python version is 3.8.5

ADD REPLY • link 3.5 years ago by sinumolg ▴ 10

0

Entering edit mode

Perhaps install Python 2.7.x in a conda environment and run the program from there?

ADD REPLY • link 3.5 years ago by Kevin Blighe 87k