[R] Does the function "c" have a character limit?
Rui Barradas
ru|pb@rr@d@@ @end|ng |rom @@po@pt
Wed Jul 13 12:36:05 CEST 2022
Hello,
This is documented behavior.
From R-intro, last line of section 1.8 [1].
Command lines entered at the console are limited4 to about 4095 bytes
(not characters).
The number 4 in limited4 is a footnote link:
some of the consoles will not allow you to enter more, and amongst those
which do some will silently discard the excess and some will use it as
the start of the next line.
Prof. Ripley called the r-devel mailing list's attention to this in
August 2006 when the limit was 1024 [2], it was then increased to the
current 4095. I remember seeing a limit of 2048 (?) but couldn't find where.
Try creating a file with your command as only content, then run
x <- readLines("rhelp.txt")
nchar(x)
# [1] 4096
You are above the limit by 1 byte.
Standard solutions are to break the command line, in your case into at
least 2 lines, or to source the command from file, like David proposed.
[1]
https://cran.r-project.org/doc/manuals/R-intro.html#R-commands_003b-case-sensitivity-etc
[2] https://stat.ethz.ch/pipermail/r-devel/2006-August/038985.html
Hope this helps,
Rui Barradas
Às 00:36 de 13/07/2022, core_contingency escreveu:
> To Whom it May Concern,
>
> I am creating a vector with the base R function "c", with many arguments
> as shown below:
>
> $ R
> > MES = c("A2M", "ABRACL", "ACADVL", "ACAP2", "ACTA2", "ACTN1",
> "ADAM19", "ADAM9", "ADAMTS5", "ADGRE5", "ADGRG6", "AEBP1", "AJUBA",
> "ALDH1A3", "AMMECR1", "ANTXR1", "ANXA1", "ANXA2", "ANXA5", "ANXA6",
> "APOE", "APP", "ARHGAP1", "ARHGEF40", "ARL1", "ARL4A", "ARMCX2",
> "ARPC1B", "ASPH", "ATP10D", "ATP1B1", "ATP2B1", "ATP2B4", "ATP6V0E1",
> "ATP8B2", "ATXN1", "B2M", "BAG3", "BGN", "BMP5", "BNC2", "BOC",
> "BTN3A2", "C1orf198", "C1orf54", "C4orf32", "C6orf120", "CALD1", "CALU",
> "CAPN2", "CAPN6", "CBFB", "CBLB", "CCDC80", "CD164", "CD44", "CD59",
> "CD63", "CDH11", "CETN2", "CFH", "CFI", "CILP", "CKAP4", "CLIC4",
> "CMTM3", "CMTM6", "CNN3", "COL11A1", "COL12A1", "COL1A1", "COL27A1",
> "COL3A1", "COL4A1", "COL4A2", "COL5A1", "COL5A2", "COL6A1", "COL6A2",
> "COL6A3", "COPA", "CPED1", "CPS1", "CRABP2", "CREB3L2", "CREG1",
> "CRELD2", "CRISPLD1", "CRTAP", "CSRP1", "CTDSP2", "CTNNA1", "CTSB",
> "CTSC", "CTSO", "CXCL12", "CYBRD1", "CYFIP1", "CYP26A1", "CYR61",
> "DCAF6", "DDOST", "DDR2", "DESI2", "DKK3", "DLC1", "DLX1", "DLX2",
> "DMD", "DNAJC1", "DNAJC10", "DNAJC3", "DNM3OS", "DPY19L1", "DSE",
> "DUSP14", "DUSP5", "DUSP6", "EDEM1", "EDNRA", "EFEMP2", "EGFR", "EGR1",
> "EGR3", "EHD2", "ELAVL1", "ELF1", "ELK3", "ELK4", "EMILIN1", "EMP1",
> "ENAH", "EPHA3", "EPS8", "ERBIN", "ERLIN1", "ERRFI1", "ETS1", "EVA1A",
> "EXT1", "EXTL2", "F2R", "F2RL2", "FAM102B", "FAM114A1", "FAM120A",
> "FAM129A", "FAM3C", "FAM43A", "FAM46A", "FAT1", "FBN1", "FBN2", "FGFR1",
> "FIBIN", "FILIP1L", "FKBP14", "FLNA", "FLRT2", "FMOD", "FN1", "FNDC3B",
> "FSTL1", "FUCA2", "FZD1", "FZD2", "FZD7", "GABRR1", "GALNT10", "GAS1",
> "GAS2", "GDF15", "GJA1", "GNAI1", "GNG12", "GNS", "GORAB", "GPC6",
> "GPR137B", "GPX8", "GRN", "GSN", "HES1", "HEXB", "HIBADH", "HIPK3",
> "HIST1H2AC", "HIST1H2BK", "HLA-A", "HLA-B", "HLA-C", "HLA-F", "HLX",
> "HNMT", "HOMER1", "HS3ST3A1", "HSP90B1", "HSPA5", "HSPB1", "HTRA1",
> "HYOU1", "ID1", "ID3", "IFI16", "IFITM2", "IFITM3", "IGF2R", "IGFBP5",
> "IGFBP6", "IL13RA1", "IL6ST", "INSIG1", "IQGAP2", "ITGA10", "ITGA4",
> "ITGAV", "ITGB1", "ITM2B", "ITM2C", "ITPR1", "ITPRIPL2", "JAK1", "JAM3",
> "KANK2", "KCNK2", "KCTD12", "KDELC2", "KDELR2", "KDELR3", "KDM5B",
> "KIAA1462", "KIF13A", "KIRREL", "KLF10", "KLF4", "KLF6", "L3HYPDH",
> "LAMB1", "LAMC1", "LAMP1", "LAPTM4A", "LASP1", "LATS2", "LEPROT",
> "LGALS1", "LHFP", "LHX8", "LIFR", "LIPA", "LITAF", "LIX1L", "LMAN1",
> "LMNA", "LOXL2", "LPP", "LRP10", "LRRC17", "LRRC8C", "LTBP1", "LUZP1",
> "MAGT1", "MAML2", "MAN2A1", "MANF", "MBD2", "MBNL1", "MBTPS1", "MEOX1",
> "MEOX2", "MEST", "MGAT2", "MGP", "MGST1", "MICAL2", "MMP2", "MOB1A",
> "MRC2", "MXRA5", "MYADM", "MYDGF", "MYL12A", "MYL12B", "MYLIP", "NANS",
> "NBR1", "NEK7", "NES", "NFIA", "NFIC", "NID1", "NID2", "NOTCH2",
> "NOTCH2NL", "NPC2", "NPTN", "NQO1", "NR3C1", "NRP1", "OGFRL1",
> "OLFML2A", "OLFML2B", "OLFML3", "OSTC", "P4HA1", "PALLD", "PAPSS2",
> "PCDH18", "PCOLCE2", "PCSK5", "PDE3A", "PDE7B", "PDGFC", "PDIA3",
> "PDIA4", "PDIA6", "PDLIM1", "PEA15", "PEAK1", "PHLDA3", "PHLDB2",
> "PHTF2", "PIAS3", "PLAGL1", "PLEKHA2", "PLEKHH2", "PLK2", "PLOD2",
> "PLOD3", "PLPP1", "PLS3", "PLSCR1", "PLSCR4", "PLXDC2", "POLR2L",
> "PON2", "POSTN", "PPIB", "PPIC", "PPT1", "PRCP", "PRDM6", "PRDX4",
> "PRDX6", "PROM1", "PRRX1", "PTBP1", "PTGER4", "PTGFRN", "PTN", "PTPN14",
> "PTPRG", "PTPRK", "PTRF", "PXDC1", "PXDN", "PYGL", "QKI", "QSOX1",
> "RAB13", "RAB29", "RAB31", "RAP1A", "RAP1B", "RBMS1", "RCN1", "RECK",
> "REST", "RGL1", "RGS10", "RGS3", "RHOC", "RHOJ", "RIN2", "RIT1",
> "RNFT1", "RNH1", "ROBO1", "ROR1", "RRBP1", "S1PR3", "SASH1", "SCPEP1",
> "SCRG1", "SDC2", "SDC4", "SDCBP", "SDF4", "SEC14L1", "SEL1L3", "SEMA3C",
> "SEMA3F", "SEPT10", "SERPINE2", "SERPINH1", "SFT2D1", "SFT2D2", "SGK1",
> "SH3BGRL", "SHC1", "SHROOM3", "SIX1", "SIX4", "SKIL", "SLC16A4",
> "SLC30A1", "SLC30A7", "SLC35F5", "SLC38A2", "SLC38A6", "SLC39A14",
> "SMAD3", "SNAI2", "SNAP23", "SOSTDC1", "SOX9", "SPARC", "SPARCL1",
> "SPATA20", "SPCS3", "SPRED1", "SPRY1", "SPRY4", "SPRY4-IT1", "SQSTM1",
> "SRPX", "SSBP4", "SSR1", "SSR3", "STAT1", "STAT3", "STEAP1", "STK38L",
> "SUCLG2", "SURF4", "SVIL", "SYDE1", "SYNJ2", "SYPL1", "TCF7L2", "TFE3",
> "TFPI", "TGFB1I1", "TGFBR2", "THBS1", "TIMP1", "TJP1")
> +
>
> For some reason, the R console does not display a ">" symbol, indicating
> that it has completed the function, but displays a "+" symbol instead,
> which indicates that the function is still waiting for more input.
> However, I believe that my syntax is correct. If I shorten my command by
> a few characters by removing the last entry, "TJP1":
>
> $ R
> > MES = c("A2M", "ABRACL", "ACADVL", "ACAP2", "ACTA2", "ACTN1",
> "ADAM19", "ADAM9", "ADAMTS5", "ADGRE5", "ADGRG6", "AEBP1", "AJUBA",
> "ALDH1A3", "AMMECR1", "ANTXR1", "ANXA1", "ANXA2", "ANXA5", "ANXA6",
> "APOE", "APP", "ARHGAP1", "ARHGEF40", "ARL1", "ARL4A", "ARMCX2",
> "ARPC1B", "ASPH", "ATP10D", "ATP1B1", "ATP2B1", "ATP2B4", "ATP6V0E1",
> "ATP8B2", "ATXN1", "B2M", "BAG3", "BGN", "BMP5", "BNC2", "BOC",
> "BTN3A2", "C1orf198", "C1orf54", "C4orf32", "C6orf120", "CALD1", "CALU",
> "CAPN2", "CAPN6", "CBFB", "CBLB", "CCDC80", "CD164", "CD44", "CD59",
> "CD63", "CDH11", "CETN2", "CFH", "CFI", "CILP", "CKAP4", "CLIC4",
> "CMTM3", "CMTM6", "CNN3", "COL11A1", "COL12A1", "COL1A1", "COL27A1",
> "COL3A1", "COL4A1", "COL4A2", "COL5A1", "COL5A2", "COL6A1", "COL6A2",
> "COL6A3", "COPA", "CPED1", "CPS1", "CRABP2", "CREB3L2", "CREG1",
> "CRELD2", "CRISPLD1", "CRTAP", "CSRP1", "CTDSP2", "CTNNA1", "CTSB",
> "CTSC", "CTSO", "CXCL12", "CYBRD1", "CYFIP1", "CYP26A1", "CYR61",
> "DCAF6", "DDOST", "DDR2", "DESI2", "DKK3", "DLC1", "DLX1", "DLX2",
> "DMD", "DNAJC1", "DNAJC10", "DNAJC3", "DNM3OS", "DPY19L1", "DSE",
> "DUSP14", "DUSP5", "DUSP6", "EDEM1", "EDNRA", "EFEMP2", "EGFR", "EGR1",
> "EGR3", "EHD2", "ELAVL1", "ELF1", "ELK3", "ELK4", "EMILIN1", "EMP1",
> "ENAH", "EPHA3", "EPS8", "ERBIN", "ERLIN1", "ERRFI1", "ETS1", "EVA1A",
> "EXT1", "EXTL2", "F2R", "F2RL2", "FAM102B", "FAM114A1", "FAM120A",
> "FAM129A", "FAM3C", "FAM43A", "FAM46A", "FAT1", "FBN1", "FBN2", "FGFR1",
> "FIBIN", "FILIP1L", "FKBP14", "FLNA", "FLRT2", "FMOD", "FN1", "FNDC3B",
> "FSTL1", "FUCA2", "FZD1", "FZD2", "FZD7", "GABRR1", "GALNT10", "GAS1",
> "GAS2", "GDF15", "GJA1", "GNAI1", "GNG12", "GNS", "GORAB", "GPC6",
> "GPR137B", "GPX8", "GRN", "GSN", "HES1", "HEXB", "HIBADH", "HIPK3",
> "HIST1H2AC", "HIST1H2BK", "HLA-A", "HLA-B", "HLA-C", "HLA-F", "HLX",
> "HNMT", "HOMER1", "HS3ST3A1", "HSP90B1", "HSPA5", "HSPB1", "HTRA1",
> "HYOU1", "ID1", "ID3", "IFI16", "IFITM2", "IFITM3", "IGF2R", "IGFBP5",
> "IGFBP6", "IL13RA1", "IL6ST", "INSIG1", "IQGAP2", "ITGA10", "ITGA4",
> "ITGAV", "ITGB1", "ITM2B", "ITM2C", "ITPR1", "ITPRIPL2", "JAK1", "JAM3",
> "KANK2", "KCNK2", "KCTD12", "KDELC2", "KDELR2", "KDELR3", "KDM5B",
> "KIAA1462", "KIF13A", "KIRREL", "KLF10", "KLF4", "KLF6", "L3HYPDH",
> "LAMB1", "LAMC1", "LAMP1", "LAPTM4A", "LASP1", "LATS2", "LEPROT",
> "LGALS1", "LHFP", "LHX8", "LIFR", "LIPA", "LITAF", "LIX1L", "LMAN1",
> "LMNA", "LOXL2", "LPP", "LRP10", "LRRC17", "LRRC8C", "LTBP1", "LUZP1",
> "MAGT1", "MAML2", "MAN2A1", "MANF", "MBD2", "MBNL1", "MBTPS1", "MEOX1",
> "MEOX2", "MEST", "MGAT2", "MGP", "MGST1", "MICAL2", "MMP2", "MOB1A",
> "MRC2", "MXRA5", "MYADM", "MYDGF", "MYL12A", "MYL12B", "MYLIP", "NANS",
> "NBR1", "NEK7", "NES", "NFIA", "NFIC", "NID1", "NID2", "NOTCH2",
> "NOTCH2NL", "NPC2", "NPTN", "NQO1", "NR3C1", "NRP1", "OGFRL1",
> "OLFML2A", "OLFML2B", "OLFML3", "OSTC", "P4HA1", "PALLD", "PAPSS2",
> "PCDH18", "PCOLCE2", "PCSK5", "PDE3A", "PDE7B", "PDGFC", "PDIA3",
> "PDIA4", "PDIA6", "PDLIM1", "PEA15", "PEAK1", "PHLDA3", "PHLDB2",
> "PHTF2", "PIAS3", "PLAGL1", "PLEKHA2", "PLEKHH2", "PLK2", "PLOD2",
> "PLOD3", "PLPP1", "PLS3", "PLSCR1", "PLSCR4", "PLXDC2", "POLR2L",
> "PON2", "POSTN", "PPIB", "PPIC", "PPT1", "PRCP", "PRDM6", "PRDX4",
> "PRDX6", "PROM1", "PRRX1", "PTBP1", "PTGER4", "PTGFRN", "PTN", "PTPN14",
> "PTPRG", "PTPRK", "PTRF", "PXDC1", "PXDN", "PYGL", "QKI", "QSOX1",
> "RAB13", "RAB29", "RAB31", "RAP1A", "RAP1B", "RBMS1", "RCN1", "RECK",
> "REST", "RGL1", "RGS10", "RGS3", "RHOC", "RHOJ", "RIN2", "RIT1",
> "RNFT1", "RNH1", "ROBO1", "ROR1", "RRBP1", "S1PR3", "SASH1", "SCPEP1",
> "SCRG1", "SDC2", "SDC4", "SDCBP", "SDF4", "SEC14L1", "SEL1L3", "SEMA3C",
> "SEMA3F", "SEPT10", "SERPINE2", "SERPINH1", "SFT2D1", "SFT2D2", "SGK1",
> "SH3BGRL", "SHC1", "SHROOM3", "SIX1", "SIX4", "SKIL", "SLC16A4",
> "SLC30A1", "SLC30A7", "SLC35F5", "SLC38A2", "SLC38A6", "SLC39A14",
> "SMAD3", "SNAI2", "SNAP23", "SOSTDC1", "SOX9", "SPARC", "SPARCL1",
> "SPATA20", "SPCS3", "SPRED1", "SPRY1", "SPRY4", "SPRY4-IT1", "SQSTM1",
> "SRPX", "SSBP4", "SSR1", "SSR3", "STAT1", "STAT3", "STEAP1", "STK38L",
> "SUCLG2", "SURF4", "SVIL", "SYDE1", "SYNJ2", "SYPL1", "TCF7L2", "TFE3",
> "TFPI", "TGFB1I1", "TGFBR2", "THBS1", "TIMP1")
> >
>
> The function now works, and returns a ">" symbol, indicating that the
> function completed successfully. The ls() function proves it:
>
> $ R
> > ls()
> [1] "MES"
>
> Is this a bug in the base R "c" function? It seems like the "c" function
> can only accept so many characters before it fails.
>
> Thank you for your time,
> core_contingency
>
>
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