ahmedelsherbini / download_hmp_data

Download Human microbiome project (WGS) data from hmpdacc.org via https

• 👋 Hi, I’m @AhmedElsherbini
• 👀 I’m interested in Bacterial, Viral genomics and Microbiome data analysis
• 🌱 I’m just learning and trying to improve my skills in bioinformatics , machine learning and in wet-lab work :))
• 📫 How to reach me? I'm a fast responder, just mail me.Looking forward to talking with you :))

download_hmp_data's Issues

Unable to download data using the sample manifest given in this repo

Hi @AhmedElsherbini. I came across your repo while trying to find a way to download dataset from HMP database. However, I am getting error when I am trying to download the data in the example_manifest.tsv which you have provided. Here is the command which I ran :-

$ python3 download_urls.py -i example_manifest.tsv
File number 1
HMP2_J09154_1_NS_T0_B0_0120_ZYHHR4Z-1023_ANBEN.biom
Erorr in file HMP2_J09154_1_NS_T0_B0_0120_ZYHHR4Z-1023_ANBEN.biom
File number 2
HMP2_J09154_1_ST_T0_B0_0120_ZYHHR4Z-1023_ADM3N.biom
Erorr in file HMP2_J09154_1_ST_T0_B0_0120_ZYHHR4Z-1023_ADM3N.biom
Finally finished!

I have been trying to download a dataset from HMP, but nothing seems to work for me. Can you please help me with this. Thanks in advance.

Regards,
Diya.