Re: Regarding LoRTIA Package

Hi Andrius, Med Team

Step 1 First I maked git clone

git clone https://github.com/zsolt-balazs/LoRTIA

Step 2 than I install dependencies 
Bedtools shruti@debian:~$ sudo apt-get install bedtools
Reading package lists... Done
Building dependency tree       
Reading state information... Done
bedtools is already the newest version (2.29.2+dfsg-3).

Step 3 Install Anacondas for pandas Requirement already satisfied: pandas in ./.local/lib/python3.8/site-packages (1.1.3)
Requirement already satisfied: pytz>=2017.2 in /usr/lib/python3/dist-packages (from pandas) (2020.1)
Requirement already satisfied: python-dateutil>=2.7.3 in /usr/lib/python3/dist-packages (from pandas) (2.8.1)
Requirement already satisfied: numpy>=1.15.4 in /usr/lib/python3/dist-packages (from pandas) (1.19.2)
and pysam

Step 4 Install Biopythonshruti@debian:~$ pip3 install Biopython
Requirement already satisfied: Biopython in ./.local/lib/python3.8/site-packages (1.78)
Requirement already satisfied: numpy in /usr/lib/python3/dist-packages (from Biopython) (1.19.2)

Step 5 Install Pysam
Requirement already satisfied: pysam in ./.local/lib/python3.8/site-packages (0.16.0.1)

Step 6
shruti@debian:~$ pip3 install scipy
Requirement already satisfied: scipy in ./.local/lib/python3.8/site-packages (1.5.3)
Requirement already satisfied: numpy>=1.14.5 in /usr/lib/python3/dist-packages (from scipy) (1.19.2)

Step 7 pip3 install LoRTIA (I used this command than I got this error)

Not able to install LoRTIA package its showing following error
ERROR: Could not find a version that satisfies the requirement LoRTIA
(from versions: none)
ERROR: No matching distribution found for LoRTIA

Now I start reading the  Mentoring of the Month (MoM) and start working again on LoRTIA.

Thanks for your consideration and support.

Regards
Shruti Gupta

On Mon, Oct 26, 2020 at 1:29 PM shruti gupta <shrutigupta.it@gmail.com> wrote:

Hello Everyone

Since I was interesting to working on the LoRTIA package, but I am not able to figure out right now what I have to do in this exactly.
Can you please suggest the next steps.

Regards
Shruti Gupta

On Fri, Oct 23, 2020 at 10:38 PM shruti gupta <shrutigupta.it@gmail.com> wrote:
Hi Med Team
I am working on LoRTIA

I have installed all the dependencies as given in READ.md
- [bedtools] (tested v. 2.28) Make sure that `bedtools>
- [pandas] (tested v. 0.24.0 and up)
- [Biopython] (tested Release 1.73)
- [pysam] (tested v. 0.15.0)
- [scipy] (tested v. 1.2.2)

Not able to install LoRTIA package its showing following error
ERROR: Could not find a version that satisfies the requirement LoRTIA (from versions: none)
ERROR: No matching distribution found for LoRTIA

Please suggest to me next steps what exactly I have to do in this package.

Regards
Shruti Gupta

On Thu, Oct 22, 2020 at 10:41 PM shruti gupta <shrutigupta.it@gmail.com> wrote:
Hello Everyone

I am working on LoRTIA

I have installed all the dependencies as given in READ.md
- [bedtools] (tested v. 2.28) Make sure that `bedtools>
- [pandas] (tested v. 0.24.0 and up)
- [Biopython] (tested Release 1.73)
- [pysam] (tested v. 0.15.0)
- [scipy] (tested v. 1.2.2)

Kindly suggest to me what I have to do in this package.

Thanks to you all for your support.

Regards
Shruti Gupta