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Full Discussion: Counts not matching in file
Top Forums Shell Programming and Scripting Counts not matching in file Post 302960235 by cjcox on Thursday 12th of November 2015 03:16:35 PM
Old 11-12-2015
1. sorted your file based on 4th column and saved it: sort -k4,4 test.bed >test.bed.sorted

2. ran my solution minus the wc -l and saved that: sort -u -k4,4 test.bed >test.bed.uniq

3. here are the diffs
Code:
4748d4747
< chr11	47270217	47270425	chr11:47270217-47270425	unknown-1062|gc=64.9
4970d4968
< chr11	5248271	5248449	chr11:5248271-5248449	HBB-283|gc=55.1
24883d24880
< chr19	13010118	13010237	chr19:13010118-13010237	SYCE2-864|gc=47.9
33027d33023
< chr22	38153605	38154160	chr22:38153605-38154160	TRIOBP-610|gc=68.6
54957d54952
< chrX	33357316	33359011	chrX:33357316-33359011	DMD-581|gc=33.7

---------- Post updated at 02:16 PM ---------- Previous update was at 02:13 PM ----------

adding just for clarity... so take 'chr11:47270217-47270425' and fgrep that string in the original test.bed file.
Code:
$ fgrep 'chr11:47270217-47270425' test.bed
chr11	47270217	47270425	chr11:47270217-47270425	ACP2-1062|gc=64.9
chr11	47270217	47270425	chr11:47270217-47270425	unknown-1062|gc=64.9

Feel free to do with the other values and you'll see that they are not unique.
This User Gave Thanks to cjcox For This Post:
 

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GO-TEST(1)						      General Commands Manual							GO-TEST(1)

NAME
go - tool for managing Go source code SYNOPSIS
go test [-c] [-i] [ build flags ] [ packages ] [ flags for test binary ] DESCRIPTION
"Go test" automates testing the packages named by the import paths. It prints a summary of the test results in the format: ok archive/tar 0.011s FAIL archive/zip 0.022s ok compress/gzip 0.033s ... followed by detailed output for each failed package. "Go test" recompiles each package along with any files with names matching the file pattern "*_test.go". These additional files can con- tain test functions, benchmark functions, and example functions. See go-testfunc(7) for more. By default, go test needs no arguments. It compiles and tests the package with source in the current directory, including tests, and runs the tests. The package is built in a temporary directory so it does not interfere with the non-test installation. OPTIONS
In addition to the build flags, the flags handled by 'go test' itself are: -c Compile the test binary to pkg.test but do not run it. -i Install packages that are dependencies of the test. Do not run the test. The test binary also accepts flags that control execution of the test; these flags are also accessible by 'go test'. See go-testflag(7) for details. For more about build flags, see go-build(1). For more about specifying packages, see go-packages(7). SEE ALSO
go-build(1), go-vet(1). AUTHOR
This manual page was written by Michael Stapelberg <stapelberg@debian.org>, for the Debian project (and may be used by others). 2012-05-13 GO-TEST(1)
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