gofmt89%

Gofmt formats Go programs. We run gofmt -s on your code, where -s is for the "simplify" command

• seqkit/seqkit/cmd/bam.go
  • Line 1: warning: file is not gofmted with -s (gofmt)

• seqkit/seqkit/cmd/bam_toolbox.go
  • Line 1: warning: file is not gofmted with -s (gofmt)

• seqkit/seqkit/cmd/sana.go
  • Line 1: warning: file is not gofmted with -s (gofmt)

• seqkit/seqkit/cmd/scat.go
  • Line 1: warning: file is not gofmted with -s (gofmt)

• seqkit/seqkit/cmd/util.go
  • Line 1: warning: file is not gofmted with -s (gofmt)

go_vet100%

go vet examines Go source code and reports suspicious constructs, such as Printf calls whose arguments do not align with the format string.

No problems detected. Good job!

gocyclo81%

Gocyclo calculates cyclomatic complexities of functions in Go source code. The cyclomatic complexity of a function is calculated according to the following rules: 1 is the base complexity of a function +1 for each 'if', 'for', 'case', '&&' or '||' Go Report Card warns on functions with cyclomatic complexity > 15.

• seqkit/seqkit/cmd/amplicon.go
  • Line 645: warning: cyclomatic complexity 21 of function SubLocationInner() is high (> 15) (gocyclo)
  • Line 721: warning: cyclomatic complexity 21 of function SubLocationFlanking() is high (> 15) (gocyclo)
  • Line 783: warning: cyclomatic complexity 20 of function (*AmpliconFinder).Locate() is high (> 15) (gocyclo)

• seqkit/seqkit/cmd/bam.go
  • Line 1133: warning: cyclomatic complexity 27 of function Bam2Bundles() is high (> 15) (gocyclo)
  • Line 179: warning: cyclomatic complexity 24 of function CountReads() is high (> 15) (gocyclo)

• seqkit/seqkit/cmd/util.go
  • Line 192: warning: cyclomatic complexity 27 of function NewSeqColorizer() is high (> 15) (gocyclo)

• seqkit/seqkit/cmd/bed.go
  • Line 51: warning: cyclomatic complexity 23 of function ReadBedFilteredFeatures() is high (> 15) (gocyclo)

• seqkit/seqkit/cmd/sana.go
  • Line 446: warning: cyclomatic complexity 25 of function streamFasta() is high (> 15) (gocyclo)
  • Line 345: warning: cyclomatic complexity 25 of function streamFastq() is high (> 15) (gocyclo)

• seqkit/seqkit/cmd/fish.go
  • Line 386: warning: cyclomatic complexity 16 of function NewSAMRecordFromAln() is high (> 15) (gocyclo)

• seqkit/seqkit/cmd/scat.go
  • Line 311: warning: cyclomatic complexity 51 of function NewFxWatcher() is high (> 15) (gocyclo)
  • Line 126: warning: cyclomatic complexity 28 of function LaunchFxWatchers() is high (> 15) (gocyclo)

• seqkit/seqkit/cmd/bam_toolbox.go
  • Line 514: warning: cyclomatic complexity 34 of function GetSamDump() is high (> 15) (gocyclo)
  • Line 398: warning: cyclomatic complexity 19 of function GetSamAlnDetails() is high (> 15) (gocyclo)
  • Line 763: warning: cyclomatic complexity 19 of function GetSamAcc() is high (> 15) (gocyclo)
  • Line 232: warning: cyclomatic complexity 18 of function BamToolAlnContext() is high (> 15) (gocyclo)

• seqkit/seqkit/cmd/subseq.go
  • Line 357: warning: cyclomatic complexity 26 of function subseqByGTFFile() is high (> 15) (gocyclo)
  • Line 467: warning: cyclomatic complexity 21 of function subSeqByBEDFile() is high (> 15) (gocyclo)

golint100%

Golint is a linter for Go source code.

No problems detected. Good job!

license100%

Checks whether your project has a LICENSE file.

No problems detected. Good job!

ineffassign83%

IneffAssign detects ineffectual assignments in Go code.

• seqkit/seqkit/cmd/seq.go
  • Line 120: warning: ineffectual assignment to validateSeq (ineffassign)

• seqkit/seqkit/cmd/split.go
  • Line 744: warning: ineffectual assignment to renameFileExt (ineffassign)

• seqkit/seqkit/cmd/split2.go
  • Line 264: warning: ineffectual assignment to flag (ineffassign)

• seqkit/seqkit/cmd/subseq.go
  • Line 379: warning: ineffectual assignment to s (ineffassign)
  • Line 476: warning: ineffectual assignment to s (ineffassign)

• seqkit/seqkit/cmd/bam.go
  • Line 185: warning: ineffectual assignment to fields (ineffassign)
  • Line 326: warning: ineffectual assignment to err (ineffassign)
  • Line 1070: warning: ineffectual assignment to err (ineffassign)

• seqkit/seqkit/cmd/bam_toolbox.go
  • Line 85: warning: ineffectual assignment to err (ineffassign)
  • Line 91: warning: ineffectual assignment to err (ineffassign)
  • Line 125: warning: ineffectual assignment to err (ineffassign)
  • Line 132: warning: ineffectual assignment to err (ineffassign)
  • Line 251: warning: ineffectual assignment to stranded (ineffassign)
  • Line 258: warning: ineffectual assignment to err (ineffassign)
  • Line 367: warning: ineffectual assignment to err (ineffassign)
  • Line 465: warning: ineffectual assignment to err (ineffassign)

• seqkit/seqkit/cmd/convert.go
  • Line 93: warning: ineffectual assignment to once (ineffassign)
  • Line 155: warning: ineffectual assignment to once (ineffassign)

• seqkit/seqkit/cmd/fish.go
  • Line 349: warning: ineffectual assignment to err (ineffassign)

misspell85%

Misspell Finds commonly misspelled English words

• seqkit/seqkit/cmd/rename.go
  • Line 77: warning: "mutliple" is a misspelling of "multiple" (misspell)

• seqkit/seqkit/cmd/seq_detect.go
  • Line 70: warning: "paramters" is a misspelling of "parameters" (misspell)
  • Line 85: warning: "optinally" is a misspelling of "optimally" (misspell)

• seqkit/seqkit/cmd/watch.go
  • Line 311: warning: "supress" is a misspelling of "suppress" (misspell)

• seqkit/seqkit/cmd/amplicon.go
  • Line 55: warning: "controled" is a misspelling of "controlled" (misspell)

• seqkit/seqkit/cmd/bam.go
  • Line 1266: warning: "supress" is a misspelling of "suppress" (misspell)
  • Line 1267: warning: "supress" is a misspelling of "suppress" (misspell)

• seqkit/seqkit/cmd/grep.go
  • Line 408: warning: "orginal" is a misspelling of "original" (misspell)
  • Line 530: warning: "orginal" is a misspelling of "original" (misspell)

• seqkit/seqkit/cmd/pair.go
  • Line 68: warning: "arugments" is a misspelling of "arguments" (misspell)