read.table on long lines buggy (PR#13626) - R-devel

Thu, Mar 26, 2009 7:18 PM #

Full_Name: Manikandan Narayanan
Version: 2.8.1
OS: linux-gnu
Submission from: (NULL) (155.91.28.231)


Hi R-folks, 
  I have two three-line text files: tst1, tst2 (they are the same except that
the second line is longer in tst1; see cat() cmds below). 

  read.table is only able to read the 3rd line in tst1, however reads tst2
correctly as shown below. This happens both in R 2.5.1 (windows) and R 2.8.1
(linux-gnu). 

  Seems to be an issue with read.table operating on long lines. It caused me
quite some trouble before uncovering this one from reading a bigger file I had!
Please take care of this one or suggest me safer ways of working with long
lines!

Thanks,  
Mani

ALG12, ALG13, ALG14, ALG2, ALG3, ALG5, ALG6, ALG7, ALG8, ALG9, AMS1, ANP1, ARA1,
ATH1, BCH1, BCH2, BMH1, BMH2, BNI4, BUD7, CAX4, CDC19, CHS3, CHS5, CHS6, CHS7,
CIT2, CTS1, CWH41, DDP1, DIE2, DIP5, DLD1, DOG1, DOG2, DPM1, ELM1, ENO1, ENO2,
EOS1, ERD1, EXG1, FBA1, FBP1, FBP26, FDH1, FKS1, GAC1, GAL1, GAL10, GAL2, GAL3,
GAL4, GAL7, GAL80, GCY1, GDA1, GDB1, GFA1, GIP2, GLC3, GLC7, GLC8, GLG1, GLG2,
GLK1, GLO2, GLO4, GNA1, GND1, GND2, GNT1, GPH1, GPM1, GRE3, GSC2, GSY1, GSY2,
GTB1, GUT2, HAP4, HKR1, HOC1, HOR2, HPF1, HXK1, HXK2, HXT4, ICL1, IMP2', INM1,
INM2, ITR1, KAR2, KEG1, KNH1, KRE2, KRE5\nc:ABC1")

[1] "c"
Warning message:
In read.table("tmp1", sep = ":", stringsAsFactors = F) :
  incomplete final line found by readTableHeader on 'tmp1'

ALG12, ALG13, ALG14, ALG2, ALG3, ALG5, ALG6, ALG7, ALG8, ALG9, AMS1, ANP1, ARA1,
ATH1, BCH1, BCH2, BMH1, BMH2, BNI4, BUD7, CAX4, CDC19, CHS3, CHS5, CHS6, CHS7,
CIT2, CTS1, CWH41, DDP1, DIE2, DIP5, DLD1, DOG1, DOG2, DPM1, ELM1, ENO1, ENO2,
EOS1, ERD1, EXG1, FBA1, FBP1, FBP26, FDH1, FKS1, GAC1, GAL1, GAL10, GAL2, GAL3,
GAL4, GAL7, GAL80, GCY1, GDA1, GDB1, GFA1, GIP2, GLC3, GLC7, GLC8, GLG1, GLG2,
GLK1, GLO2, GLO4, GNA1, GND1, GND2, GNT1, GPH1\nc:ABC1\n")

[1] "a" "b" "c"