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Error in the installation of m-coffee #64

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claceline opened this issue Apr 16, 2024 · 3 comments
Open

Error in the installation of m-coffee #64

claceline opened this issue Apr 16, 2024 · 3 comments

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@claceline
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Hello, I installed using the command

clara@Tornado:~/Desktop/T-COFFEE_distribution_Version_13.45.65.6aa3132e$ ./install mcoffee

and I also used the command

clara@Tornado:~/Desktop/T-COFFEE_distribution_Version_13.45.65.6aa3132e$ **./install all

but famsa and m-coffee are not getting installed.

--2024-04-14 17:17:03-- https://www.tcoffee.org/Packages/Binaries/plugins/linux/famsa
Resolving www.tcoffee.org (www.tcoffee.org)... 3.160.107.34, 3.160.107.120, 3.160.107.13, ...
Connecting to www.tcoffee.org (www.tcoffee.org)|3.160.107.34|:443... connected.
HTTP request sent, awaiting response... 301 Moved Permanently
Location: http://tcoffee.org/Packages/Binaries/plugins/linux/famsa [following]
--2024-04-14 17:17:03-- http://tcoffee.org/Packages/Binaries/plugins/linux/famsa
Resolving tcoffee.org (tcoffee.org)... 65.8.214.79, 65.8.214.23, 65.8.214.75, ...
Connecting to tcoffee.org (tcoffee.org)|65.8.214.79|:80... connected.
HTTP request sent, awaiting response... 301 Moved Permanently
Location: https://tcoffee.org/Packages/Binaries/plugins/linux/famsa [following]
--2024-04-14 17:17:04-- https://tcoffee.org/Packages/Binaries/plugins/linux/famsa
Connecting to tcoffee.org (tcoffee.org)|65.8.214.79|:443... connected.
HTTP request sent, awaiting response... 404 Not Found
2024-04-14 17:17:06 ERROR 404: Not Found.

!!!!!!! famsa : Download of famsa binary failed
!!!!!!! famsa : Check Address: http://www.tcoffee.org/Packages/Binaries/plugins/linux/famsa

------- Downloading/Installing famsa
--2024-04-14 17:17:06-- https://github.com/refresh-bio/FAMSA.git
Resolving github.com (github.com)... 140.82.112.4
Connecting to github.com (github.com)|140.82.112.4|:443... connected.
HTTP request sent, awaiting response... 301 Moved Permanently
Location: https://github.com/refresh-bio/FAMSA [following]
--2024-04-14 17:17:06-- https://github.com/refresh-bio/FAMSA
Reusing existing connection to github.com:443.
HTTP request sent, awaiting response... 200 OK
Length: unspecified [text/html]
Saving to: ‘/home/clara/Desktop/T-COFFEE_distribution_Version_13.45.65.6aa3132e/bin/cache/tmp/wget.tmp’

/home/clara/Desktop/T-COFFEE_distrib [ <=> ] 344,27K 425KB/s in 0,8s

2024-04-14 17:17:08 (425 KB/s) - ‘/home/clara/Desktop/T-COFFEE_distribution_Version_13.45.65.6aa3132e/bin/cache/tmp/wget.tmp’ saved [352535]

------- unzipping/untaring FAMSA.git
Error: does not exist
------- Compiling/Installing famsa
--2024-04-14 17:17:08-- https://www.tcoffee.org/Packages/Binaries/plugins/linux/famsa
Resolving www.tcoffee.org (www.tcoffee.org)... 3.160.107.13, 3.160.107.120, 3.160.107.125, ...
Connecting to www.tcoffee.org (www.tcoffee.org)|3.160.107.13|:443... connected.
HTTP request sent, awaiting response... 301 Moved Permanently
Location: http://tcoffee.org/Packages/Binaries/plugins/linux/famsa [following]
--2024-04-14 17:17:08-- http://tcoffee.org/Packages/Binaries/plugins/linux/famsa
Resolving tcoffee.org (tcoffee.org)... 65.8.214.79, 65.8.214.69, 65.8.214.23, ...
Connecting to tcoffee.org (tcoffee.org)|65.8.214.79|:80... connected.
HTTP request sent, awaiting response... 301 Moved Permanently
Location: https://tcoffee.org/Packages/Binaries/plugins/linux/famsa [following]
--2024-04-14 17:17:09-- https://tcoffee.org/Packages/Binaries/plugins/linux/famsa
Connecting to tcoffee.org (tcoffee.org)|65.8.214.79|:443... connected.
HTTP request sent, awaiting response... 404 Not Found
2024-04-14 17:17:10 ERROR 404: Not Found.

!!!!!!! famsa : Download of famsa binary failed
!!!!!!! famsa : Check Address: http://www.tcoffee.org/Packages/Binaries/plugins/linux/famsa
!!!!!!!! famsa compilation and binary installation failed

------- Executable Installed in: /home/clara/.t_coffee/plugins/linux
*------ clustalw : updated [from binary]
*------ probcons : updated [from binary]
*------ muscle : updated [from binary]
*------ famsa : failed installation
*------ mafft : updated [from binary]
*------ dialign-tx : updated [from binary]
*------ prank : updated [from binary]
*------ poa : updated [from binary]
*------ clustalo : updated [from binary]
*------ t_coffee : installed [from binary]
*------ kalign : updated [from binary]
*------ pcma : updated [from binary]
*------ dialign-t : updated [from binary]
*------ clustalw2 : updated [from binary]
*------ proda : updated [from binary]
*------ probconsRNA : updated [from binary]
*------ SUMMARY mode Installation:
*!!!!!! famsa : Missing
*!!!!!! MODE mcoffee UNSUCCESSFULLY installed

Can you help me? Thank you.
@cnotred
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cnotred commented Apr 16, 2024 via email

@claceline
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claceline commented Apr 16, 2024 •
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Thank you very much,
I managed to install FAMSA with your help,
but how do I proceed with m-coffee? I understand that it can only be installed via T-Coffee, and the installation of m-coffee is still failing.
Sorry about my English.

!!!!!! MODE mcoffee UNSUCCESSFULLY installed

@JoseEspinosa
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Hi, sorry for the late reply, the reason mcoffe was reported and not being correctly installed is that FAMSA was failing. Once installed, mcoffee should work.

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3 participants
@cnotred @JoseEspinosa @claceline