search for: bam

...nbox=no for that namespace and then inbox=yes for another? My doveconf -n is below. I would like to have inbox=yes for the inbox namespace, inbox=no for the virtual namespace, and then be able to invert these for selected users using userdb extra fields. My attempt at doing this so far looks like bam-ios:[REDACTED]:500:500::/home/bam::user=bam namespace/inbox/inbox=no namespace/virtual/inbox=yes Changing the user with user= seems to work fine, but the inbox= changes don't. Here is some relevant log data. Aug 2 11:37:29 new-miranda dovecot: auth: Debug: Loading modules from directory: /us...

...nscript of my R session. First I load the code from a file, using source(). Then I execute it fine. Then I remove the function object, I load the package, and execute the same code from the package - and I get an error. Please help! Mick > library(Rsamtools) > source("viRome/R/read.bam.R") > read.bam function(bamfile=NULL, chr=NULL, start=1, end=1e07, what=c("qname", "flag", "rname", "strand", "pos", "qwidth", "mapq", "cigar", "mrnm", "mpos", "isize&quo...

Dear all, I am trying to use 'bam' to run the following generalized additive model: ### m <- bam(result ~ factor(city) + factor(year) + lnpopulation + s(lnincome_pc) + ,data=full_df,na.action=na.omit,family=ziP(theta = NULL, link = "identity",b=0)) But getting the following error: ### Error in bam(result : ext...

Do you have the mgcv package installed (I think it's part of the standard distro, though) /loaded? ziP is there, not in BAM. Other than that, sorry, no clue. Cheers, Bert Bert Gunter "The trouble with having an open mind is that people keep coming along and sticking things into it." -- Opus (aka Berkeley Breathed in his "Bloom County" comic strip ) On Mon, Nov 6, 2017 at 9:12 AM, Miluji Sb &lt...

Hi all: I've got a data of ".bam" which is created from my partner under linux sysyem. My system is window xp, and I wanna know how to read the .bam file. Many thanks! My best [[alternative HTML version deleted]]

Hello, I'm trying to use the bam() function in the R mgcv package for a large set of grouped binary data. However, I have found that this function does not take data in the format of cbind(numerator, denominator) on the left hand side of the formula. As an example, consider the following dat1 <- data.frame(id=rep(1:6, each=3),...

Hi R users, I'm using the 'bam' function in mgcv to examine trends in a remotely sensed vegetation index. I have one random effect variable, 'cons' (with six levels) which identifies different subjects within this analysis. My model is specified as follows: rm4<-bam(trend~factor(zone)+s(cons,bs="re")+...

Hi, Is the stars command in the base package or do I need to download? I am looking to make star/radar/spider charts. Thanks! Britt Britt Aronovich Marketing Analyst BAM (Brooklyn Academy of Music) ... Peter Jay Sharp Building 30 Lafayette Ave. Brooklyn, NY 11217-01486 ... P: 718.724.8038 E: baronovich@BAM.org<mailto:baronovich@BAM.org> BAM.org Facebook.com/BAMstage Twitter.com/BAM_Brooklyn [[alternative HTML version deleted]]

Dear useRs, I reran an analysis with bam (mgcv, version 1.7-17) originally conducted using an older version of bam (mgcv, version 1.7-11) and this resulted in the same estimates, but much lower standard errors (in some cases 20 times as low) and lower p-values. This obviously results in a larger set of significant predictors. Is this resu...

...message, because the R script I wrote works fine when it is run from a regular terminal ..) Please may I ask, how do you usually submit the R scripts with command line arguments to PBS HPC schedulers ? qsub -d $PWD -l nodes=1:ppn=4 -l vmem=10gb -m bea -M tanasa at gmail.com \ -v TUMOR="tumor.bam",GERMLINE="germline.bam",CHR="chr22" \ -e script.efile.chr22 \ -o script.ofile.chr22 \ script.R Thank you very very much ! -- bogdan [[alternative HTML version deleted]]

...[c(17,19:29,31:42,44)],")", collapse="+")) # numeric variables, all count data ) # complete cases gam.basis_alleakti.1.complete_cases = complete.cases(activisale_join[,all.vars(gam.basis_alleakti.1.formula) ]) # modell fitting works on random subset gam.basis_alleakti.1=bam(gam.basis_alleakti.1.formula, data = activisale_join[subset.10000, ], family= "binomial") # error, no idea why gam.basis_alleakti.1.pr=predict(gam.basis_alleakti.1, newdata=activisale_join[gam.basis_alleakti.1.complete_cases, ],type="response")...

...)) > } > print(TUMOR) > print(GERMLINE) > print(CHR) qsub shell script test.sh: > #!/bin/bash > > #Note: the single quote '...' around the --args ... "..." "..." is important! > R CMD BATCH --no-save --no-restore '--args TUMOR="tumor.bam" GERMLINE="germline.bam" CHR="chr22"' test.R test.Rout then you submit with a qsub with all the options you specified the test.sh qsub .... test.sh cheers Peter > On 12. Jul 2017, at 03:01, Jeff Newmiller <jdnewmil at dcn.davis.ca.us> wrote: > > Thi...

...rsion 1.7-10, but problem also occurs with earlier versions (e.g., 1.7-6) > dat = read.csv('dat.csv',header=T) # data available at: http://www.martijnwieling.nl/dat.csv > dim(dat) # the original dataset is larger, but the problem also occurs in this subset [1] 20000 4 > model = bam(PronDist ~ s(Participant,IsDem,bs="re"), data=dat) > print(model) # works fine > summary(model, freq=T) # works fine > summary(model) # the Bayesian p-value estimation does not work: Error in eigen(B, symmetric = TRUE) : infinite or missing values in 'x' I obviously am i...

Hi, I also had some problems using chan_oh323 together with gnugk. * <-> gnugk <-> h323-phone When I called the phone and hang up, befor the phone was picked up, the h323-phone continued ringing. The same, when the h323- and some sip-phones were called, and the sip-phone picked up the call first. (It is annoying, when you are talking to someone at the phone and the phone on the

...wrote works >fine when it is run from a regular terminal ..) > >Please may I ask, how do you usually submit the R scripts with command >line >arguments to PBS HPC schedulers ? > >qsub -d $PWD -l nodes=1:ppn=4 -l vmem=10gb -m bea -M tanasa at gmail.com \ >-v TUMOR="tumor.bam",GERMLINE="germline.bam",CHR="chr22" \ >-e script.efile.chr22 \ >-o script.ofile.chr22 \ >script.R > >Thank you very very much ! > >-- bogdan > > [[alternative HTML version deleted]] > >______________________________________________ >R-h...

...ion is the following: in the ?gamm? function, generalized additive mixed models can be estimated by including random components. These can be explicitly defined in the syntax, where you can also define whether the random component is an intercept, slope, or both. My understanding is that in the gam/bam function the same is achieved by including the bs="re? option for random intercepts and linear random slopes. Am I correct? If so, is there a way to specify whether it is the intercept or slope we are interested in, and does that have any effect on the output of the model? I hope these questi...

I'm on a mac, and I'm trying to get a series of complicated things to work. Yay! I've got an iRobot Create with BAM (Bluetooth Adapter Module), and I'm trying to get RealTerm, which is a serial Terminal, to not only send serial commands from the wine emulation to my real system, but to get those serial commands to be sent over bluetooth to a specific device, and have the input from that device be relayed bac...

...giving up... Zapata Telephony Interface Unloaded [prompt]# lspci 00:00.0 Host bridge: Intel Corp. 82815 815 Chipset Host Bridge and Memory Controller Hub (rev 11) 00:02.0 VGA compatible controller: Intel Corp. 82815 CGC [Chipset Graphics Controller] (rev 11) 00:1e.0 PCI bridge: Intel Corp. 82801BAM/CAM PCI Bridge (rev 03) 00:1f.0 ISA bridge: Intel Corp. 82801BAM ISA Bridge (LPC) (rev 03) 00:1f.1 IDE interface: Intel Corp. 82801BAM IDE U100 (rev 03) 00:1f.2 USB Controller: Intel Corp. 82801BA/BAM USB (Hub #1) (rev 03) 00:1f.3 SMBus: Intel Corp. 82801BA/BAM SMBus (rev 03) 00:1f.4 USB Controller...

...2860 860 (Wombat) Chipset AGP Bridge (rev 04) 00:1e.0 PCI bridge: Intel Corporation 82801 PCI Bridge (rev 04) 00:1f.0 ISA bridge: Intel Corporation 82801BA ISA Bridge (LPC) (rev 04) 00:1f.1 IDE interface: Intel Corporation 82801BA IDE U100 (rev 04) 00:1f.2 USB Controller: Intel Corporation 82801BA/BAM USB (Hub #1) (rev 04) 00:1f.3 SMBus: Intel Corporation 82801BA/BAM SMBus (rev 04) 00:1f.4 USB Controller: Intel Corporation 82801BA/BAM USB (Hub #2) (rev 04) 00:1f.5 Multimedia audio controller: Intel Corporation 82801BA/BAM AC'97 Audio (rev 04) 01:00.0 VGA compatible controller: nVidia Corpor...

...ge: Intel Corp. 82845 845 (Brookdale) Chipset AGP Bridge (rev 04) 00:1e.0 PCI bridge: Intel Corp. 82801BA/CA PCI Bridge (rev 05) 00:1f.0 ISA bridge: Intel Corp. 82801BA ISA Bridge (LPC) (rev 05) 00:1f.1 IDE interface: Intel Corp. 82801BA IDE U100 (rev 05) 00:1f.2 USB Controller: Intel Corp. 82801BA/BAM USB (Hub (rev 05) 00:1f.3 SMBus: Intel Corp. 82801BA/BAM SMBus (rev 05) 00:1f.4 USB Controller: Intel Corp. 82801BA/BAM USB (Hub (rev 05) 00:1f.5 Multimedia audio controller: Intel Corp. 82801BA/BAM AC'97 Audio (rev 05) 01:00.0 VGA compatible controller: nVidia Corporation: Unknown device 017...