[GRASS-stats] R-GRASS error: "all connections are in use"
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Juan Manuel Barreneche
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Hello list,
I'm currently using R version 2.5.0 (2007-04-23) in conjunction with GRASS6.2.2. My goal is to use a loop to extract data from rasters created in grass (a different raster in each simulation, created with r.cost using a unique cost surface raster, which is deleted every time in order to free disk space). Percent complete: 100% r.out.bin complete. REMOVE [nombre] raster header category color MISSING history misc fcell MISSING g3dcell MISSING Creating BIL support files ... Header File = /home/mastermind/GRASSDATA/prueba/wordlclim/.tmp/torre11b1-4/nombre.hdr World File = /home/mastermind/GRASSDATA/prueba/wordlclim/.tmp/torre11b1-4/nombre.wld Exporting Raster as integer values (bytes=2) Using the Current Region settings ... north=-34.474986 south=-34.966653 east=-55.866644 west=-56.558311 r=59 c=83 Porcentaje completado: 100% r.out.bin complete. Error in file(paste(fname, "wld", sep = "."), "r") : all connections are in use In addition, after this message every time i try a help comand (such as ?file, ?rbind, etc...) i get the same message: Error in file(con, "r"): all connections are in use I've been working with R and GRASS for about 9 months and I'm not much of a specialist, so i'm really lost here, does anybody have a clue about the solution of this problem? many thanks, Juan Manuel _______________________________________________ grass-stats mailing list [hidden email] http://lists.osgeo.org/mailman/listinfo/grass-stats |
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Jarosław Jasiewicz
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Hi
This message apeeared on the begining of the loop or in somewhere in the iteration please type the full command (full loop) you have used uan Manuel Barreneche pisze: > Hello list, > > I'm currently using R version 2.5.0 (2007-04-23) in conjunction with > GRASS6.2.2. > > My goal is to use a loop to extract data from rasters created in grass > (a different raster in each simulation, created with r.cost using a > unique cost surface raster, which is deleted every time in order to > free disk space). > > Percent complete: 100% > r.out.bin complete. > REMOVE [nombre] > raster > header > category > color MISSING > history > misc > fcell MISSING > g3dcell MISSING > Creating BIL support files ... > Header File = /home/mastermind/GRASSDATA/prueba/wordlclim/.tmp/torre11b1-4/nombre.hdr > World File = /home/mastermind/GRASSDATA/prueba/wordlclim/.tmp/torre11b1-4/nombre.wld > Exporting Raster as integer values (bytes=2) > Using the Current Region settings ... > north=-34.474986 > south=-34.966653 > east=-55.866644 > west=-56.558311 > r=59 > c=83 > > Porcentaje completado: 100% > r.out.bin complete. > Error in file(paste(fname, "wld", sep = "."), "r") : > all connections are in use > > In addition, after this message every time i try a help comand (such > as ?file, ?rbind, etc...) i get the same message: > Error in file(con, "r"): all connections are in use > > I've been working with R and GRASS for about 9 months and I'm not much > of a specialist, so i'm really lost here, does anybody have a clue > about the solution of this problem? > > many thanks, > > Juan Manuel > _______________________________________________ > grass-stats mailing list > [hidden email] > http://lists.osgeo.org/mailman/listinfo/grass-stats > _______________________________________________ grass-stats mailing list [hidden email] http://lists.osgeo.org/mailman/listinfo/grass-stats |
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Roger Bivand
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On Fri, 25 Apr 2008, Jarosaw Jasiewicz wrote:
> Hi > This message apeeared on the begining of the loop or in somewhere in the > iteration > > please type the full command (full loop) you have used > > > > uan Manuel Barreneche pisze: >> Hello list, >> >> I'm currently using R version 2.5.0 (2007-04-23) in conjunction with >> GRASS6.2.2. Please always include the output of sessionInfo(), in addition to the R version. spgrass6 is updated from time to time, so it may be that you are - for example - using an obsolete route, although you are using BIL files, so I guess that this is readRAST6() in a loop, as Jarek suggested. Specifically, I think that this problem was solved in R-2.6.0 - the relevant news item is: o Connections will be closed if there is no R object referring to them. A warning is issued if this is done, either at garbage collection or if all the connection slots are in use. which means that functions do not need to close them explicitly. Roger >> >> My goal is to use a loop to extract data from rasters created in grass >> (a different raster in each simulation, created with r.cost using a >> unique cost surface raster, which is deleted every time in order to >> free disk space). >> >> Percent complete: 100% >> r.out.bin complete. >> REMOVE [nombre] >> raster >> header >> category >> color MISSING >> history >> misc >> fcell MISSING >> g3dcell MISSING >> Creating BIL support files ... >> Header File = >> /home/mastermind/GRASSDATA/prueba/wordlclim/.tmp/torre11b1-4/nombre.hdr >> World File = >> /home/mastermind/GRASSDATA/prueba/wordlclim/.tmp/torre11b1-4/nombre.wld >> Exporting Raster as integer values (bytes=2) >> Using the Current Region settings ... >> north=-34.474986 >> south=-34.966653 >> east=-55.866644 >> west=-56.558311 >> r=59 >> c=83 >> >> Porcentaje completado: 100% >> r.out.bin complete. >> Error in file(paste(fname, "wld", sep = "."), "r") : >> all connections are in use >> >> In addition, after this message every time i try a help comand (such >> as ?file, ?rbind, etc...) i get the same message: >> Error in file(con, "r"): all connections are in use >> >> I've been working with R and GRASS for about 9 months and I'm not much >> of a specialist, so i'm really lost here, does anybody have a clue >> about the solution of this problem? >> >> many thanks, >> >> Juan Manuel >> _______________________________________________ >> grass-stats mailing list >> [hidden email] >> http://lists.osgeo.org/mailman/listinfo/grass-stats >> > > _______________________________________________ > grass-stats mailing list > [hidden email] > http://lists.osgeo.org/mailman/listinfo/grass-stats > > -- Roger Bivand Economic Geography Section, Department of Economics, Norwegian School of Economics and Business Administration, Helleveien 30, N-5045 Bergen, Norway. voice: +47 55 95 93 55; fax +47 55 95 95 43 e-mail: [hidden email] _______________________________________________ grass-stats mailing list [hidden email] http://lists.osgeo.org/mailman/listinfo/grass-stats Roger Bivand
Economic Geography Section Department of Economics Norwegian School of Economics and Business Administration Helleveien 30 N-5045 Bergen, Norway |
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Juan Manuel Barreneche
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Well, thanks to you all, the problem was fixed. It turned out that
RB's suggestion was right (i updated R, only). I apologize for sending only partial information (in fact it was because of a distraction that i didn't put all the script, etc. in the email). One thing caugth my attention though: every time i call readRAST6 a warning message apears, saying: > warnings() $`closing unused connection 3 (gsub(" ", ":", l8))` NULL I suppose this is exactly the improvement that Roger B. pointed out in his reply, and i just didn't give much importance to it. Please let me know if there is something important to take into consideration... Thanks again, JM On Fri, Apr 25, 2008 at 3:52 AM, Roger Bivand <[hidden email]> wrote: > On Fri, 25 Apr 2008, Jarosaw Jasiewicz wrote: > > > > Hi > > This message apeeared on the begining of the loop or in somewhere in the > iteration > > > > please type the full command (full loop) you have used > > > > > > > > uan Manuel Barreneche pisze: > > > > > Hello list, > > > > > > I'm currently using R version 2.5.0 (2007-04-23) in conjunction with > > > GRASS6.2.2. > > > > > > > Please always include the output of sessionInfo(), in addition to the R > version. spgrass6 is updated from time to time, so it may be that you are - > for example - using an obsolete route, although you are using BIL files, so > I guess that this is readRAST6() in a loop, as Jarek suggested. > > Specifically, I think that this problem was solved in R-2.6.0 - the > relevant news item is: > > o Connections will be closed if there is no R object referring to > them. A warning is issued if this is done, either at garbage > collection or if all the connection slots are in use. > > which means that functions do not need to close them explicitly. > > Roger > > > > > > > > > > > > My goal is to use a loop to extract data from rasters created in grass > > > (a different raster in each simulation, created with r.cost using a > > > unique cost surface raster, which is deleted every time in order to > > > free disk space). > > > > > > Percent complete: 100% > > > r.out.bin complete. > > > REMOVE [nombre] > > > raster > > > header > > > category > > > color MISSING > > > history > > > misc > > > fcell MISSING > > > g3dcell MISSING > > > Creating BIL support files ... > > > Header File = > > > /home/mastermind/GRASSDATA/prueba/wordlclim/.tmp/torre11b1-4/nombre.hdr > > > World File = > > > /home/mastermind/GRASSDATA/prueba/wordlclim/.tmp/torre11b1-4/nombre.wld > > > Exporting Raster as integer values (bytes=2) > > > Using the Current Region settings ... > > > north=-34.474986 > > > south=-34.966653 > > > east=-55.866644 > > > west=-56.558311 > > > r=59 > > > c=83 > > > > > > Porcentaje completado: 100% > > > r.out.bin complete. > > > Error in file(paste(fname, "wld", sep = "."), "r") : > > > all connections are in use > > > > > > In addition, after this message every time i try a help comand (such > > > as ?file, ?rbind, etc...) i get the same message: > > > Error in file(con, "r"): all connections are in use > > > > > > I've been working with R and GRASS for about 9 months and I'm not much > > > of a specialist, so i'm really lost here, does anybody have a clue > > > about the solution of this problem? > > > > > > many thanks, > > > > > > Juan Manuel > > > _______________________________________________ > > > grass-stats mailing list > > > [hidden email] > > > http://lists.osgeo.org/mailman/listinfo/grass-stats > > > > > > > > > > _______________________________________________ > > grass-stats mailing list > > [hidden email] > > http://lists.osgeo.org/mailman/listinfo/grass-stats > > > > > > > > -- > Roger Bivand > Economic Geography Section, Department of Economics, Norwegian School of > Economics and Business Administration, Helleveien 30, N-5045 Bergen, > Norway. voice: +47 55 95 93 55; fax +47 55 95 95 43 > e-mail: [hidden email] > > grass-stats mailing list [hidden email] http://lists.osgeo.org/mailman/listinfo/grass-stats |
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Roger Bivand
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On Fri, 25 Apr 2008, Juan Manuel Barreneche wrote:
> Well, thanks to you all, the problem was fixed. It turned out that > RB's suggestion was right (i updated R, only). I apologize for sending > only partial information (in fact it was because of a distraction that > i didn't put all the script, etc. in the email). > > One thing caugth my attention though: every time i call readRAST6 a > warning message apears, saying: > >> warnings() > $`closing unused connection 3 (gsub(" ", ":", l8))` > NULL > > I suppose this is exactly the improvement that Roger B. pointed out in > his reply, and i just didn't give much importance to it. Please let me > know if there is something important to take into consideration... It is just a warning message, nothing more, but in future releases I will try to get it to go away by opening and closing the connections explicitly. I had though that more recent versions had fixed the problem, I don't think that we know what version of spgrass6 you are using. Roger > > Thanks again, > > JM > > > > On Fri, Apr 25, 2008 at 3:52 AM, Roger Bivand <[hidden email]> wrote: >> On Fri, 25 Apr 2008, Jarosaw Jasiewicz wrote: >> >> >>> Hi >>> This message apeeared on the begining of the loop or in somewhere in the >> iteration >>> >>> please type the full command (full loop) you have used >>> >>> >>> >>> uan Manuel Barreneche pisze: >>> >>>> Hello list, >>>> >>>> I'm currently using R version 2.5.0 (2007-04-23) in conjunction with >>>> GRASS6.2.2. >>>> >>> >> >> Please always include the output of sessionInfo(), in addition to the R >> version. spgrass6 is updated from time to time, so it may be that you are - >> for example - using an obsolete route, although you are using BIL files, so >> I guess that this is readRAST6() in a loop, as Jarek suggested. >> >> Specifically, I think that this problem was solved in R-2.6.0 - the >> relevant news item is: >> >> o Connections will be closed if there is no R object referring to >> them. A warning is issued if this is done, either at garbage >> collection or if all the connection slots are in use. >> >> which means that functions do not need to close them explicitly. >> >> Roger >> >> >> >> >>> >>>> >>>> My goal is to use a loop to extract data from rasters created in grass >>>> (a different raster in each simulation, created with r.cost using a >>>> unique cost surface raster, which is deleted every time in order to >>>> free disk space). >>>> >>>> Percent complete: 100% >>>> r.out.bin complete. >>>> REMOVE [nombre] >>>> raster >>>> header >>>> category >>>> color MISSING >>>> history >>>> misc >>>> fcell MISSING >>>> g3dcell MISSING >>>> Creating BIL support files ... >>>> Header File = >>>> /home/mastermind/GRASSDATA/prueba/wordlclim/.tmp/torre11b1-4/nombre.hdr >>>> World File = >>>> /home/mastermind/GRASSDATA/prueba/wordlclim/.tmp/torre11b1-4/nombre.wld >>>> Exporting Raster as integer values (bytes=2) >>>> Using the Current Region settings ... >>>> north=-34.474986 >>>> south=-34.966653 >>>> east=-55.866644 >>>> west=-56.558311 >>>> r=59 >>>> c=83 >>>> >>>> Porcentaje completado: 100% >>>> r.out.bin complete. >>>> Error in file(paste(fname, "wld", sep = "."), "r") : >>>> all connections are in use >>>> >>>> In addition, after this message every time i try a help comand (such >>>> as ?file, ?rbind, etc...) i get the same message: >>>> Error in file(con, "r"): all connections are in use >>>> >>>> I've been working with R and GRASS for about 9 months and I'm not much >>>> of a specialist, so i'm really lost here, does anybody have a clue >>>> about the solution of this problem? >>>> >>>> many thanks, >>>> >>>> Juan Manuel >>>> _______________________________________________ >>>> grass-stats mailing list >>>> [hidden email] >>>> http://lists.osgeo.org/mailman/listinfo/grass-stats >>>> >>>> >>> >>> _______________________________________________ >>> grass-stats mailing list >>> [hidden email] >>> http://lists.osgeo.org/mailman/listinfo/grass-stats >>> >>> >>> >> >> -- >> Roger Bivand >> Economic Geography Section, Department of Economics, Norwegian School of >> Economics and Business Administration, Helleveien 30, N-5045 Bergen, >> Norway. voice: +47 55 95 93 55; fax +47 55 95 95 43 >> e-mail: [hidden email] >> >> > -- Roger Bivand Economic Geography Section, Department of Economics, Norwegian School of Economics and Business Administration, Helleveien 30, N-5045 Bergen, Norway. voice: +47 55 95 93 55; fax +47 55 95 95 43 e-mail: [hidden email] _______________________________________________ grass-stats mailing list [hidden email] http://lists.osgeo.org/mailman/listinfo/grass-stats Roger Bivand
Economic Geography Section Department of Economics Norwegian School of Economics and Business Administration Helleveien 30 N-5045 Bergen, Norway |
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