How To Install lagan on Fedora 34
lagan is Local, global, and multiple alignment of DNA sequences
Introduction
In this tutorial we learn how to install lagan on Fedora 34.
What is lagan
LAGAN toolkit is a set of tools for local, global, and multiple alignment of DNA sequences. Please visit http describing LAGAN and its components. The 4 main parts of LAGAN are 1. CHAOS local alignment tool 2. LAGAN pairwise global alignment tool 3. MLAGAN multiple global alignment tool. 4. Shuffle-LAGAN pairwise global alignment
We can use yum or dnf to install lagan on Fedora 34. In this tutorial we discuss both methods but you only need to choose one of method to install lagan.
Install lagan on Fedora 34 Using dnf
Update yum database with dnf using the following command.
sudo dnf makecache --refresh
The output should look something like this:
Fedora 34 - x86_64 20 kB/s | 6.6 kB 00:00
Fedora 34 openh264 (From Cisco) - x86_64 1.4 kB/s | 989 B 00:00
Fedora Modular 34 - x86_64 68 kB/s | 6.5 kB 00:00
Fedora 34 - x86_64 - Updates 3.5 kB/s | 6.2 kB 00:01
Fedora Modular 34 - x86_64 - Updates 17 kB/s | 5.9 kB 00:00
Metadata cache created.
After updating yum database, We can install lagan using dnf by running the following command:
sudo dnf -y install lagan
Install lagan on Fedora 34 Using yum
Update yum database with yum using the following command.
sudo yum makecache --refresh
The output should look something like this:
Fedora 34 - x86_64 20 kB/s | 6.6 kB 00:00
Fedora 34 openh264 (From Cisco) - x86_64 1.4 kB/s | 989 B 00:00
Fedora Modular 34 - x86_64 68 kB/s | 6.5 kB 00:00
Fedora 34 - x86_64 - Updates 3.5 kB/s | 6.2 kB 00:01
Fedora Modular 34 - x86_64 - Updates 17 kB/s | 5.9 kB 00:00
Metadata cache created.
After updating yum database, We can install lagan using yum by running the following command:
sudo yum -y install lagan
How To Uninstall lagan on Fedora 34
To uninstall only the lagan package we can use the following command:
sudo dnf remove lagan
lagan Package Contents on Fedora 34
/usr/bin/chaos
/usr/bin/lagan
/usr/bin/mlagan
/usr/bin/prolagan
/usr/bin/slagan
/usr/lib/.build-id
/usr/lib/.build-id/2e
/usr/lib/.build-id/2e/40463ce7ac8012abc7ff129c597c86b56fecd5
/usr/lib/.build-id/4c
/usr/lib/.build-id/4c/cfd4b618db9babd1a3a6cdfe007e0f5fc50a38
/usr/lib/.build-id/4d
/usr/lib/.build-id/4d/352c11c6aa98425c54225e59ac8ae7552871fb
/usr/lib/.build-id/62
/usr/lib/.build-id/62/48362b72e7aa8fca8d04453658961b84509256
/usr/lib/.build-id/64
/usr/lib/.build-id/64/7c47bd64632bc7bc362eaab1081128d3b73dac
/usr/lib/.build-id/6e
/usr/lib/.build-id/6e/16c84f46d9c952abb271292aad0d54de146898
/usr/lib/.build-id/74
/usr/lib/.build-id/74/a5214517ff231971fdb45411558b5f2afb4aae
/usr/lib/.build-id/7f
/usr/lib/.build-id/7f/57b5a0fd0bf0abc4448858bb7a9035d2d371b5
/usr/lib/.build-id/83
/usr/lib/.build-id/83/fb3b51c3ef4aaa4af02af2485bf7fcfab67602
/usr/lib/.build-id/a5
/usr/lib/.build-id/a5/406a447570498cbf2195b32b51c11e7247a900
/usr/lib/.build-id/b4
/usr/lib/.build-id/b4/3c02ca51ff8b1bf9919b34a818577205954355
/usr/lib/.build-id/b9
/usr/lib/.build-id/b9/0ba17be8c9985168099f4f22c2fb4eb39a49fa
/usr/lib/.build-id/ba
/usr/lib/.build-id/ba/ed5c9d2682fbc649e2eaab31f7f67cee651935
/usr/lib/.build-id/bd
/usr/lib/.build-id/bd/81ad5860bc704e5337733ec5703dcadf5c8c1f
/usr/lib/.build-id/bf
/usr/lib/.build-id/bf/f796f4b40ef0052a52489a25c3d8a44e253ca8
/usr/lib/.build-id/c1
/usr/lib/.build-id/c1/76a459db5bc4be978f1200a09f83fbc0dc6ff7
/usr/lib/.build-id/c8
/usr/lib/.build-id/c8/622e4d61502f6814e4b34aaa7289f140a621d5
/usr/lib/.build-id/d7
/usr/lib/.build-id/d7/1cb3ca9a94da5ed499eda3fef78e86b392466a
/usr/lib/.build-id/d7/dc5422460c4991f4c236960c866424d4372508
/usr/lib/.build-id/e7
/usr/lib/.build-id/e7/8a903b83eb00dd6d73430e2af3aeede2aadb45
/usr/lib/.build-id/f0
/usr/lib/.build-id/f0/60fd3a093de8fbea610b2c998b11c96072e829
/usr/lib/.build-id/f7
/usr/lib/.build-id/f7/98a52e19d675b5077324eeff832ecf868b86ed
/usr/lib/.build-id/fe
/usr/lib/.build-id/fe/3556d8c9e0b600b43ca3a885b50671a14efc04
/usr/lib64/lagan
/usr/lib64/lagan/anal_gloc.pl
/usr/lib64/lagan/anchors
/usr/lib64/lagan/blosum62.txt
/usr/lib64/lagan/blosum62s.txt
/usr/lib64/lagan/glocal
/usr/lib64/lagan/nucmatrix.txt
/usr/lib64/lagan/order
/usr/lib64/lagan/rechaos.pl
/usr/lib64/lagan/supermap.pl
/usr/lib64/lagan/test.score
/usr/lib64/lagan/utils
/usr/lib64/lagan/utils/Glue
/usr/lib64/lagan/utils/bin2bl
/usr/lib64/lagan/utils/bin2mf
/usr/lib64/lagan/utils/cextract
/usr/lib64/lagan/utils/cmerge2.pl
/usr/lib64/lagan/utils/contigorder
/usr/lib64/lagan/utils/cstat
/usr/lib64/lagan/utils/dotplot
/usr/lib64/lagan/utils/draft.pl
/usr/lib64/lagan/utils/fa2xfa
/usr/lib64/lagan/utils/getbounds
/usr/lib64/lagan/utils/getcontigpos
/usr/lib64/lagan/utils/getlength
/usr/lib64/lagan/utils/getoverlap
/usr/lib64/lagan/utils/mextract.pl
/usr/lib64/lagan/utils/mf2bin.pl
/usr/lib64/lagan/utils/mpretty.pl
/usr/lib64/lagan/utils/mproject.pl
/usr/lib64/lagan/utils/mrun.pl
/usr/lib64/lagan/utils/mrunfile.pl
/usr/lib64/lagan/utils/mrunpairs.pl
/usr/lib64/lagan/utils/mviz.pl
/usr/lib64/lagan/utils/overlay
/usr/lib64/lagan/utils/rc
/usr/lib64/lagan/utils/scorealign
/usr/lib64/lagan/utils/scorecontigs
/usr/lib64/lagan/utils/seqmerge
/usr/lib64/lagan/xmfa2mfa.pl
/usr/share/doc/lagan
/usr/share/doc/lagan/LICENSE
/usr/share/doc/lagan/README.FIRST
/usr/share/doc/lagan/README.chaos
/usr/share/doc/lagan/README.lagan
/usr/share/doc/lagan/README.mlagan
/usr/share/doc/lagan/README.shuffle
/usr/share/doc/lagan/README.tools
/usr/share/doc/lagan/sample.fasta
/usr/share/doc/lagan/sample.params
References
Summary
In this tutorial we learn how to install lagan on Fedora 34 using yum and dnf.