Ebert,Timothy Aaron
2022-Jul-13 13:20 UTC
[R] Does the function "c" have a character limit?
The limits to the size of vectors, matrices, data frames, lists, or other data
structure does not have a simple answer.
1) 2^31 - 1 is the maximum number of rows.
https://stackoverflow.com/questions/5233769/practical-limits-of-r-data-frame#:~:text=The%20number%20is%202%5E31,start%20collecting%20several%20of%20them.
2) help(Memory) suggests that the default limit for all variables is 6 Mb. The
help page tells you how to change this.
Neither of these two factors have any bearing on this problem except that your
vector is not close to these limits.
I got the same result you did when I entered your vector into my system (R 4.2
in RStudio, on 64 bit Windows). I shortened it by removing the first entry and
it works.
I can copy the entire line into Microsoft Word, and count the number of
characters (including spaces) and I get 4089. There were seven characters in the
first entry including the comma and space. If I add seven spaces between MES and
the equal sign I get the original outcome. So the limit is on the number of
characters in the line. You can get more entries by shortening each entry, or
fewer if each entry was longer.
As others have suggested, I would break the line into two pieces and then
combine the pieces.
Tim
-----Original Message-----
From: R-help <r-help-bounces at r-project.org> On Behalf Of Rui Barradas
Sent: Wednesday, July 13, 2022 6:36 AM
To: core_contingency <ccontingency at gmail.com>; r-help at r-project.org
Subject: Re: [R] Does the function "c" have a character limit?
[External Email]
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://urldefense.proofpoint.com/v2/url?u=https-3A__cran.r-2Dproject.org_doc_manuals_R-2Dintro.html-23R-2Dcommands-5F003b-2Dcase-2Dsensitivity-2Detc&d=DwIDaQ&c=sJ6xIWYx-zLMB3EPkvcnVg&r=9PEhQh2kVeAsRzsn7AkP-g&m=bDsMNmn2OhMbQIvptul8Yl752vW7YkxJ0v91xFMGuYQo9NsNdzAp5k0CD2XzMc9x&s=g5cbrpfyHaIN9sXycd_-f2iDsOcbuzLe2u3KjvQNm-0&e[2]
https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_pipermail_r-2Ddevel_2006-2DAugust_038985.html&d=DwIDaQ&c=sJ6xIWYx-zLMB3EPkvcnVg&r=9PEhQh2kVeAsRzsn7AkP-g&m=bDsMNmn2OhMbQIvptul8Yl752vW7YkxJ0v91xFMGuYQo9NsNdzAp5k0CD2XzMc9x&s=B1YSca31vHlpy9WJG8o0MBTh7bX4v7M61eWfQ4tmdog&e
Hope this helps,
Rui Barradas
?s 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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provide commented, minimal, self-contained, reproducible code.
Breaking up the *line* doesn't mean breaking up the *command*.
For example,
x <- c(
"FOOBAR", # 1
...
"FOOBAR", # 4999
"UGGLE")
works fine, with source(..), with "R -f ...", and other ways.
Each *line* is short, but it's still one *command*.
I'd probably put that much data in a file, myself,
but R doesn't mind.
On Thu, 14 Jul 2022 at 01:21, Ebert,Timothy Aaron <tebert at ufl.edu>
wrote:
> The limits to the size of vectors, matrices, data frames, lists, or other
> data structure does not have a simple answer.
> 1) 2^31 - 1 is the maximum number of rows.
>
https://stackoverflow.com/questions/5233769/practical-limits-of-r-data-frame#:~:text=The%20number%20is%202%5E31,start%20collecting%20several%20of%20them
> .
> 2) help(Memory) suggests that the default limit for all variables is 6 Mb.
> The help page tells you how to change this.
> Neither of these two factors have any bearing on this problem except that
> your vector is not close to these limits.
>
> I got the same result you did when I entered your vector into my system (R
> 4.2 in RStudio, on 64 bit Windows). I shortened it by removing the first
> entry and it works.
>
> I can copy the entire line into Microsoft Word, and count the number of
> characters (including spaces) and I get 4089. There were seven characters
> in the first entry including the comma and space. If I add seven spaces
> between MES and the equal sign I get the original outcome. So the limit is
> on the number of characters in the line. You can get more entries by
> shortening each entry, or fewer if each entry was longer.
>
> As others have suggested, I would break the line into two pieces and then
> combine the pieces.
>
> Tim
>
>
>
> -----Original Message-----
> From: R-help <r-help-bounces at r-project.org> On Behalf Of Rui
Barradas
> Sent: Wednesday, July 13, 2022 6:36 AM
> To: core_contingency <ccontingency at gmail.com>; r-help at
r-project.org
> Subject: Re: [R] Does the function "c" have a character limit?
>
> [External Email]
>
> 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://urldefense.proofpoint.com/v2/url?u=https-3A__cran.r-2Dproject.org_doc_manuals_R-2Dintro.html-23R-2Dcommands-5F003b-2Dcase-2Dsensitivity-2Detc&d=DwIDaQ&c=sJ6xIWYx-zLMB3EPkvcnVg&r=9PEhQh2kVeAsRzsn7AkP-g&m=bDsMNmn2OhMbQIvptul8Yl752vW7YkxJ0v91xFMGuYQo9NsNdzAp5k0CD2XzMc9x&s=g5cbrpfyHaIN9sXycd_-f2iDsOcbuzLe2u3KjvQNm-0&e>
[2]
>
https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_pipermail_r-2Ddevel_2006-2DAugust_038985.html&d=DwIDaQ&c=sJ6xIWYx-zLMB3EPkvcnVg&r=9PEhQh2kVeAsRzsn7AkP-g&m=bDsMNmn2OhMbQIvptul8Yl752vW7YkxJ0v91xFMGuYQo9NsNdzAp5k0CD2XzMc9x&s=B1YSca31vHlpy9WJG8o0MBTh7bX4v7M61eWfQ4tmdog&e>
>
> Hope this helps,
>
> Rui Barradas
>
>
> ?s 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
> >
> >
> > ______________________________________________
> > R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> > https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_mail
> >
man_listinfo_r-2Dhelp&d=DwIDaQ&c=sJ6xIWYx-zLMB3EPkvcnVg&r=9PEhQh2kVeAs
> >
Rzsn7AkP-g&m=bDsMNmn2OhMbQIvptul8Yl752vW7YkxJ0v91xFMGuYQo9NsNdzAp5k0CD
> > 2XzMc9x&s=x5SJbPFsoqRiJYh7Y5B0QDKio2Wy4Je38lBBi99AbAE&e>
> PLEASE do read the posting guide
> > https://urldefense.proofpoint.com/v2/url?u=http-3A__www.R-2Dproject.or
> >
g_posting-2Dguide.html&d=DwIDaQ&c=sJ6xIWYx-zLMB3EPkvcnVg&r=9PEhQh2kVeA
> >
sRzsn7AkP-g&m=bDsMNmn2OhMbQIvptul8Yl752vW7YkxJ0v91xFMGuYQo9NsNdzAp5k0C
> > D2XzMc9x&s=lCG5D1ItMs8G_wkshvm4nBaVq4Ehy_zyq5mnp2zpt2Y&e>
> and provide commented, minimal, self-contained, reproducible code.
>
> ______________________________________________
> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
>
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>
https://urldefense.proofpoint.com/v2/url?u=http-3A__www.R-2Dproject.org_posting-2Dguide.html&d=DwIDaQ&c=sJ6xIWYx-zLMB3EPkvcnVg&r=9PEhQh2kVeAsRzsn7AkP-g&m=bDsMNmn2OhMbQIvptul8Yl752vW7YkxJ0v91xFMGuYQo9NsNdzAp5k0CD2XzMc9x&s=lCG5D1ItMs8G_wkshvm4nBaVq4Ehy_zyq5mnp2zpt2Y&e>
and provide commented, minimal, self-contained, reproducible code.
> ______________________________________________
> R-help at r-project.org mailing list -- To UNSUBSCRIBE and more, see
> https://stat.ethz.ch/mailman/listinfo/r-help
> PLEASE do read the posting guide
> http://www.R-project.org/posting-guide.html
> and provide commented, minimal, self-contained, reproducible code.
>
[[alternative HTML version deleted]]
@vi@e@gross m@iii@g oii gm@ii@com
2022-Jul-13 17:46 UTC
[R] Does the function "c" have a character limit?
If I follow this thread, it looks clear that the problem is superficial and not
really about the c() function as it is below sea level.
Is this also a problem if you replace c() with max () or list() as I think it
may be? Then it is more about what length the interpreter is able to handle
everywhere or on your installation or memory constraints.
There are, of course, lots of ways to work around it and some have been
mentioned, as you clearly have data.frames with underlying vectors that are
millions of units long including with character data like yours.
I was able to reproduce your problem within RSTUDIO and noted the editor window
actually cuts off the text and asks you to click to see more, which may be a
hint. Have you tried a paste of this long thing directly to an R interpreter not
through RSTUDIO?
I did an experiment and broke up the big monster that failed into multiple short
lines and it works fine. It looks like a LINE LENGTH limit, not a statement
limit.
So if your data was entered say like this:
MES=c(
"A2M",
"ABRACL",
"ACADVL",
"ACAP2",
...,
"TIMP1",
"TJP1"
)
Then it should work for much larger amounts of data.
And, of course, you can enter multiple smaller units and concatenate them
together in the code and remove the originals, as long as each unit was small
enough. Reading the data in from a file also should bypass the issue if done
right.
There is no reason every programmer should try to make everything a one-liner.
-----Original Message-----
From: R-help <r-help-bounces at r-project.org> On Behalf Of Ebert,Timothy
Aaron
Sent: Wednesday, July 13, 2022 9:21 AM
To: Rui Barradas <ruipbarradas at sapo.pt>; core_contingency
<ccontingency at gmail.com>; r-help at r-project.org
Subject: Re: [R] Does the function "c" have a character limit?
The limits to the size of vectors, matrices, data frames, lists, or other data
structure does not have a simple answer.
1) 2^31 - 1 is the maximum number of rows.
https://stackoverflow.com/questions/5233769/practical-limits-of-r-data-frame#:~:text=The%20number%20is%202%5E31,start%20collecting%20several%20of%20them.
2) help(Memory) suggests that the default limit for all variables is 6 Mb. The
help page tells you how to change this.
Neither of these two factors have any bearing on this problem except that your
vector is not close to these limits.
I got the same result you did when I entered your vector into my system (R 4.2
in RStudio, on 64 bit Windows). I shortened it by removing the first entry and
it works.
I can copy the entire line into Microsoft Word, and count the number of
characters (including spaces) and I get 4089. There were seven characters in the
first entry including the comma and space. If I add seven spaces between MES and
the equal sign I get the original outcome. So the limit is on the number of
characters in the line. You can get more entries by shortening each entry, or
fewer if each entry was longer.
As others have suggested, I would break the line into two pieces and then
combine the pieces.
Tim
-----Original Message-----
From: R-help <r-help-bounces at r-project.org> On Behalf Of Rui Barradas
Sent: Wednesday, July 13, 2022 6:36 AM
To: core_contingency <ccontingency at gmail.com>; r-help at r-project.org
Subject: Re: [R] Does the function "c" have a character limit?
[External Email]
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://urldefense.proofpoint.com/v2/url?u=https-3A__cran.r-2Dproject.org_doc_manuals_R-2Dintro.html-23R-2Dcommands-5F003b-2Dcase-2Dsensitivity-2Detc&d=DwIDaQ&c=sJ6xIWYx-zLMB3EPkvcnVg&r=9PEhQh2kVeAsRzsn7AkP-g&m=bDsMNmn2OhMbQIvptul8Yl752vW7YkxJ0v91xFMGuYQo9NsNdzAp5k0CD2XzMc9x&s=g5cbrpfyHaIN9sXycd_-f2iDsOcbuzLe2u3KjvQNm-0&e[2]
https://urldefense.proofpoint.com/v2/url?u=https-3A__stat.ethz.ch_pipermail_r-2Ddevel_2006-2DAugust_038985.html&d=DwIDaQ&c=sJ6xIWYx-zLMB3EPkvcnVg&r=9PEhQh2kVeAsRzsn7AkP-g&m=bDsMNmn2OhMbQIvptul8Yl752vW7YkxJ0v91xFMGuYQo9NsNdzAp5k0CD2XzMc9x&s=B1YSca31vHlpy9WJG8o0MBTh7bX4v7M61eWfQ4tmdog&e
Hope this helps,
Rui Barradas
?s 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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> 2XzMc9x&s=x5SJbPFsoqRiJYh7Y5B0QDKio2Wy4Je38lBBi99AbAE&e> PLEASE
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