Qiime1 installation

Other Bioinformatics Tools
1

I have trying to install qiime1 using the following command
conda create -n qiime1 python=2.7 qiime matplotlib=1.4.3 mock nose -c bioconda
but it errors saying python 2.7 does not work anymore?
Is there a way around this? cause I need to combine multiple sample fasta files using add_qiime_labels.py
Thank you !

2

Why not import your FASTA data into QIIME 2 with qiime tools import …, and then simply use qiime feature-table merge-seqs?

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3

I was under the impression that you cannot use qiime2 for analysis when you have fasta files for samples i.e., in this project I have 935 fasta files for crohns and healthy individuals. I was trying to combine them into a single fasta file for further analysis? Please, let me know if my logic here is wrong cause I’m new to qiime and metagenomic analysis.

Thanks!

5

Oh right... that is why you need add_qiime_labels.py to get your files into this format. Sorry about that. :man_facepalming:

But once you have that you can proceed with the procedure outlined in the link I provided.

Perhaps run QIIME 1 via a docker container? There are quite a few out there. If not, perhaps someone on the forum has some code to share?

6

Hello again

So I tried using conda which did not work as python 2.7 is not supported anymore but I looked up qiime installation and I was able to make it using virtual machine for qiime. Thanks!

3 Likes
7

Thanks for letting us know @mallika. I’m glad you were able to get the virtual machine to work. :tada:

8

Thanks so much! I struggled to get qiime 1.9 launched until I read your post. You made my day!