A common bioinformatics problem, joining two tables :P I wonder why you posted your question to the "Web Development" section but it happens to be the only forum I subscribe to
Some comments about your code:
-w has been superseded by use warnings.
The chomp() function removes return carriages and newlines.
The strategy I would use is to find some way to just capture the assembly information and using the assembly information to store the information on the line:
Then read file2 like you did before and get the required information from your %line2 hash.
Hi All,
I have working (Perl) code to combine 2 input files into a single output file using the join function that works to a point, but has the following limitations:
1. I am restrained to 2 input files only.
2. Only the "matched" fields are written out to the "matched" output file and... (1 Reply)
I have n files (for ex:64 files) with one similar column. Is it possible to combine them all based on that column ?
file1
ax100 20 30 40
ax200 22 33 44
file2
ax100 10 20 40
ax200 12 13 44
file2
ax100 0 0 4
ax200 2 3 4 (9 Replies)
Hi,
I have line in input file as below:
3G_CENTRAL;INDONESIA_(M)_TELKOMSEL;SPECIAL_WORLD_GRP_7_FA_2_TELKOMSEL
My expected output for line in the file must be :
"1-Radon1-cMOC_deg"|"LDIndex"|"3G_CENTRAL|INDONESIA_(M)_TELKOMSEL"|LAST|"SPECIAL_WORLD_GRP_7_FA_2_TELKOMSEL"
Can someone... (7 Replies)
Hi,
I'm dealing with an issue and losing a lot of hours figuring out how i would solve this.
I have an input file which looks like this:
('BLABLA +200-GRS','Serviço ','TarifaçãoServiço','wap.bla.us.0000000121',2985,0,55,' de conversão em escada','Dia','Domingos')
('BLABLA +200-GRR','Serviço... (6 Replies)
Hi,
I have 20 tab delimited text files that have a common column (column 1). The files are named GSM1.txt through GSM20.txt. Each file has 3 columns (2 other columns in addition to the first common column).
I want to write a script to join the files by the first common column so that in the... (5 Replies)
Hi all,
I'm trying to join two .txt file tab delimitated based on a common column.
File 1
transcript_id gene_id length effective_length expected_count TPM FPKM IsoPct
comp1000201_c0_seq1 comp1000201_c0 337 183.51 0.00 0.00 0.00 0.00
comp1000297_c0_seq1 ... (1 Reply)
Dear Ladies & Gents,
I have a requirement to delete all the log files in /var/log/test directory that are older than 10 days and their first line begin with "MSH" or "<?xml" or "FHS". I've put together the following BASH script, but it's erroring out:
for filename in $(find /var/log/test... (2 Replies)
Hello,
This post is already here but want to do this with another way
Merge multiples files with multiples duplicates keys by filling "NULL" the void columns for anothers joinning files
file1.csv:
1|abc
1|def
2|ghi
2|jkl
3|mno
3|pqr
file2.csv:
1|123|jojo
1|NULL|bibi... (2 Replies)
Discussion started by: yjacknewton
2 Replies
LEARN ABOUT MOJAVE
git-merge-index
GIT-MERGE-INDEX(1) Git Manual GIT-MERGE-INDEX(1)NAME
git-merge-index - Run a merge for files needing merging
SYNOPSIS
git merge-index [-o] [-q] <merge-program> (-a | [--] <file>*)
DESCRIPTION
This looks up the <file>(s) in the index and, if there are any merge entries, passes the SHA-1 hash for those files as arguments 1, 2, 3
(empty argument if no file), and <file> as argument 4. File modes for the three files are passed as arguments 5, 6 and 7.
OPTIONS --
Do not interpret any more arguments as options.
-a
Run merge against all files in the index that need merging.
-o
Instead of stopping at the first failed merge, do all of them in one shot - continue with merging even when previous merges returned
errors, and only return the error code after all the merges.
-q
Do not complain about a failed merge program (a merge program failure usually indicates conflicts during the merge). This is for
porcelains which might want to emit custom messages.
If git merge-index is called with multiple <file>s (or -a) then it processes them in turn only stopping if merge returns a non-zero exit
code.
Typically this is run with a script calling Git's imitation of the merge command from the RCS package.
A sample script called git merge-one-file is included in the distribution.
ALERT ALERT ALERT! The Git "merge object order" is different from the RCS merge program merge object order. In the above ordering, the
original is first. But the argument order to the 3-way merge program merge is to have the original in the middle. Don't ask me why.
Examples:
torvalds@ppc970:~/merge-test> git merge-index cat MM
This is MM from the original tree. # original
This is modified MM in the branch A. # merge1
This is modified MM in the branch B. # merge2
This is modified MM in the branch B. # current contents
or
torvalds@ppc970:~/merge-test> git merge-index cat AA MM
cat: : No such file or directory
This is added AA in the branch A.
This is added AA in the branch B.
This is added AA in the branch B.
fatal: merge program failed
where the latter example shows how git merge-index will stop trying to merge once anything has returned an error (i.e., cat returned an
error for the AA file, because it didn't exist in the original, and thus git merge-index didn't even try to merge the MM thing).
GIT
Part of the git(1) suite
Git 2.17.1 10/05/2018 GIT-MERGE-INDEX(1)