Package: CytoML

Version: 1.13.6

Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:CytoML.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings CytoML_1.13.6.tar.gz

StartedAt: 2020-01-16 03:28:21 -0500 (Thu, 16 Jan 2020)

EndedAt: 2020-01-16 03:33:12 -0500 (Thu, 16 Jan 2020)

EllapsedTime: 290.3 seconds

RetCode: 0

Status:  WARNINGS

CheckDir: CytoML.Rcheck

Warnings: 6

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### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:CytoML.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings CytoML_1.13.6.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.11-bioc/meat/CytoML.Rcheck’
* using R Under development (unstable) (2019-12-14 r77572)
* using platform: x86_64-apple-darwin15.6.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘CytoML/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘CytoML’ version ‘1.13.6’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... OK
* checking if this is a source package ... OK
* checking if there is a namespace ... OK
* checking for hidden files and directories ... OK
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘CytoML’ can be installed ... WARNING
Found the following significant warnings:
  Warning: replacing previous import ‘ncdfFlow::filter’ by ‘dplyr::filter’ when loading ‘CytoML’
See ‘/Users/biocbuild/bbs-3.11-bioc/meat/CytoML.Rcheck/00install.out’ for details.
* checking installed package size ... NOTE
  installed size is  6.4Mb
  sub-directories of 1Mb or more:
    extdata   4.8Mb
* checking package directory ... OK
* checking ‘build’ directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Package listed in more than one of Depends, Imports, Suggests, Enhances:
  ‘methods’
A package should be listed in only one of these fields.
Versioned 'LinkingTo' values for
  ‘BH’ ‘RcppParallel’
are only usable in R >= 3.0.2
* checking top-level files ... OK
* checking for left-over files ... OK
* checking index information ... OK
* checking package subdirectories ... OK
* checking R files for non-ASCII characters ... OK
* checking R files for syntax errors ... OK
* checking whether the package can be loaded ... OK
* checking whether the package can be loaded with stated dependencies ... OK
* checking whether the package can be unloaded cleanly ... OK
* checking whether the namespace can be loaded with stated dependencies ... OK
* checking whether the namespace can be unloaded cleanly ... OK
* checking dependencies in R code ... NOTE
Namespaces in Imports field not imported from:
  ‘RUnit’ ‘corpcor’ ‘openCyto’ ‘stats’
  All declared Imports should be used.
Unexported objects imported by ':::' calls:
  ‘flowWorkspace:::check_comp’ ‘flowWorkspace:::cs_set_compensation’
  ‘flowWorkspace:::parse_transformer’
  ‘flowWorkspace:::set_transformations’ ‘lattice:::updateList’
  See the note in ?`:::` about the use of this operator.
* checking S3 generic/method consistency ... OK
* checking replacement functions ... OK
* checking foreign function calls ... OK
* checking R code for possible problems ... NOTE
addCustomInfo: no visible global function definition for
  ‘gh_get_transformations’
addGate: no visible binding for global variable ‘id’
addGate: no visible binding for global variable ‘gate_id’
addGate: no visible binding for global variable ‘fcs’
addGate: no visible binding for global variable ‘fcs_file_id’
addGate: no visible binding for global variable ‘gate_def’
addGate: no visible binding for global variable ‘name’
ce_get_panels: no visible binding for global variable ‘panel’
ce_get_panels: no visible binding for global variable ‘n’
constructTree: no visible binding for global variable ‘id’
constructTree: no visible binding for global variable ‘name’
createTransformIdentifier: no visible global function definition for
  ‘slotNames’
cytobank_to_gatingset.cytobank_experiment: no visible binding for
  global variable ‘desc’
diva_to_gatingset: no visible binding for global variable ‘specimen’
diva_to_gatingset: no visible binding for global variable
  ‘sampleSelected’
export_comp_trans: no visible global function definition for
  ‘gh_get_compensations’
export_comp_trans: no visible global function definition for
  ‘gh_get_transformations’
export_gates_cytobank: no visible global function definition for
  ‘gs_get_pop_paths’
export_gates_cytobank: no visible global function definition for
  ‘gs_pop_get_gate’
extend.polygonGate: no visible binding for global variable ‘..dim’
extend.polygonGate : <anonymous>: no visible binding for global
  variable ‘y’
extend.polygonGate : <anonymous>: no visible binding for global
  variable ‘x’
extend.polygonGate: no visible binding for global variable ‘id’
extend.polygonGate: no visible binding for global variable ‘x’
extend.polygonGate: no visible binding for global variable ‘y’
extend.polygonGate: no visible binding for global variable ‘is.smaller’
generate_trans: no visible global function definition for
  ‘flowjo_log_trans’
gs_compare_cytobank_counts: no visible binding for global variable
  ‘population’
gs_compare_cytobank_counts: no visible binding for global variable
  ‘parent’
gs_compare_cytobank_counts: no visible binding for global variable
  ‘parent_count’
gs_compare_cytobank_counts: no visible global function definition for
  ‘.’
gs_compare_cytobank_counts: no visible binding for global variable
  ‘fcs_filename’
open_cytobank_experiment: no visible global function definition for
  ‘unzip’
range.GatingHierarchy: no visible global function definition for
  ‘gh_get_transformations’
read.gatingML.cytobank: no visible binding for global variable ‘id’
read.gatingML.cytobank: no visible binding for global variable
  ‘comp_ref’
write.gatingML: no visible global function definition for ‘sessionInfo’
xmlVertexNode : <anonymous>: no visible global function definition for
  ‘format_float’
identifyNode,http...www.isac.net.org.std.Gating.ML.v2.0.transformations_spectrumMatrix:
  no visible global function definition for ‘pseudoinverse’
Undefined global functions or variables:
  . ..dim comp_ref desc fcs fcs_file_id fcs_filename flowjo_log_trans
  format_float gate_def gate_id gh_get_compensations
  gh_get_transformations gs_get_pop_paths gs_pop_get_gate id is.smaller
  n name panel parent parent_count population pseudoinverse
  sampleSelected sessionInfo slotNames specimen unzip x y
Consider adding
  importFrom("methods", "slotNames")
  importFrom("utils", "sessionInfo", "unzip")
to your NAMESPACE file (and ensure that your DESCRIPTION Imports field
contains 'methods').
* checking Rd files ... OK
* checking Rd metadata ... OK
* checking Rd cross-references ... WARNING
Missing link or links in documentation object 'flowjo_to_gatingset.Rd':
  ‘GatingSet’

See section 'Cross-references' in the 'Writing R Extensions' manual.

* checking for missing documentation entries ... WARNING
Undocumented code objects:
  ‘parseWorkspace’
Undocumented S4 methods:
  generic 'parseWorkspace' and siglist 'flowjo_workspace'
All user-level objects in a package (including S4 classes and methods)
should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking for code/documentation mismatches ... WARNING
Codoc mismatches from documentation object 'cytobank_experiment-methods':
markernames
  Code: function(object, ...)
  Docs: function(object)
  Argument names in code not in docs:
    ...
colnames
  Code: function(x, do.NULL = TRUE, prefix = "col")
  Docs: function(object)
  Argument names in code not in docs:
    x do.NULL prefix
  Argument names in docs not in code:
    object
  Mismatches in argument names:
    Position: 1 Code: x Docs: object

S4 class codoc mismatches from documentation object 'flowjo_workspace-class':
Slots for class 'flowjo_workspace'
  Code: doc
  Docs: .cache doc file options path version

* checking Rd \usage sections ... WARNING
Undocumented arguments in documentation object 'ce_get_transformations'
  ‘...’

Objects in \usage without \alias in documentation object 'cytobank_experiment-methods':
  ‘markernames’ ‘colnames’ ‘sampleNames’ ‘pData’

Undocumented arguments in documentation object 'diva_to_gatingset'
  ‘name’ ‘subset’ ‘path’ ‘fast’ ‘worksheet’ ‘swap_cols’ ‘verbose’

Undocumented arguments in documentation object 'flowjo_to_gatingset'
  ‘ws’ ‘name’ ‘subset’ ‘execute’ ‘path’ ‘h5_dir’ ‘includeGates’
  ‘additional.keys’ ‘additional.sampleID’ ‘keywords’ ‘keywords.source’
  ‘keyword.ignore.case’ ‘extend_val’ ‘extend_to’ ‘channel.ignore.case’
  ‘leaf.bool’ ‘include_empty_tree’ ‘compensation’ ‘transform’
  ‘fcs_file_extension’ ‘mc.cores’
Documented arguments not in \usage in documentation object 'flowjo_to_gatingset':
  ‘obj’

Undocumented arguments in documentation object 'gatingset_to_flowjo'
  ‘showHidden’

Undocumented arguments in documentation object 'open_flowjo_xml'
  ‘sampNloc’
Documented arguments not in \usage in documentation object 'open_flowjo_xml':
  ‘workspace’

Functions with \usage entries need to have the appropriate \alias
entries, and all their arguments documented.
The \usage entries must correspond to syntactically valid R code.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
* checking Rd contents ... OK
* checking for unstated dependencies in examples ... OK
* checking line endings in shell scripts ... OK
* checking line endings in C/C++/Fortran sources/headers ... OK
* checking line endings in Makefiles ... OK
* checking compilation flags in Makevars ... WARNING
Non-portable flags in variable 'PKG_CPPFLAGS':
  -Wno-unknown-pragmas -Wno-comment
Package has both ‘src/Makevars.in’ and ‘src/Makevars’.
Installation with --no-configure' is unlikely to work.  If you intended
‘src/Makevars’ to be used on Windows, rename it to ‘src/Makevars.win’
otherwise remove it.  If ‘configure’ created ‘src/Makevars’, you need a
‘cleanup’ script.
* checking for GNU extensions in Makefiles ... NOTE
GNU make is a SystemRequirements.
* checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
* checking use of PKG_*FLAGS in Makefiles ... OK
* checking compiled code ... NOTE
Note: information on .o files is not available
File ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library/CytoML/libs/CytoML.so’:
  Found ‘__ZNSt3__14cerrE’, possibly from ‘std::cerr’ (C++)
  Found ‘__ZNSt3__14coutE’, possibly from ‘std::cout’ (C++)
  Found ‘___assert_rtn’, possibly from ‘assert’ (C)

Compiled code should not call entry points which might terminate R nor
write to stdout/stderr instead of to the console, nor use Fortran I/O
nor system RNGs. The detected symbols are linked into the code but
might come from libraries and not actually be called.

See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
                           user system elapsed
gs_compare_cytobank_counts   17  5.158   8.716
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: 6 WARNINGs, 6 NOTEs
See
  ‘/Users/biocbuild/bbs-3.11-bioc/meat/CytoML.Rcheck/00check.log’
for details.

##############################################################################
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###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL CytoML
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.0/Resources/library’
* installing *source* package ‘CytoML’ ...
** using staged installation
checking whether the C++ compiler works... yes
checking for C++ compiler default output file name... a.out
checking for suffix of executables... 
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C++ compiler... yes
checking whether clang++ -std=gnu++11 accepts -g... yes
checking for gcc... clang
checking whether we are using the GNU C compiler... yes
checking whether clang accepts -g... yes
checking for clang option to accept ISO C89... none needed
configure: setting xml2 flags...
configure: No directory was specified for --with-xml2. Trying to find xml2 using other methods.
checking for xml2-config... /usr/bin/xml2-config
configure: setting cytolib-ml commandline tool path...
configure: Using the following compilation and linking flags
configure:    PKG_CPPFLAGS=-I/usr/include/libxml2 -ftemplate-depth=900
configure:    PKG_LIBS=-lxml2 -lz -lpthread -licucore -lm 
configure:    CYTOLIBML_BIN=/usr/local/bin
configure: creating ./config.status
config.status: creating src/Makevars
config.status: creating R/cytolibml_bin_path.R
** libs
clang++ -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include/ -I/usr/include/libxml2 -ftemplate-depth=900 -DBOOST_NO_AUTO_PTR -Wno-unknown-pragmas -Wno-comment  -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/BH/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RProtoBufLib/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/cytolib/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rhdf5lib/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppParallel/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/flowWorkspace/include' -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -c RcppExports.cpp -o RcppExports.o
In file included from RcppExports.cpp:4:
In file included from ./../inst/include/CytoML.h:5:
In file included from ../inst/include/CytoML/openWorkspace.hpp:11:
In file included from ../inst/include/CytoML/macFlowJoWorkspace.hpp:10:
In file included from ../inst/include/CytoML/flowJoWorkspace.hpp:13:
/Library/Frameworks/R.framework/Versions/4.0/Resources/library/cytolib/include/cytolib/H5CytoFrame.hpp:47:7: warning: 'cytolib::H5CytoFrame::set_params' hides overloaded virtual function [-Woverloaded-virtual]
        void set_params(const vector<cytoParam> & _params)
             ^
/Library/Frameworks/R.framework/Versions/4.0/Resources/library/cytolib/include/cytolib/CytoFrame.hpp:115:15: note: hidden overloaded virtual function 'cytolib::CytoFrame::set_params' declared here: different number of parameters (2 vs 1)
        virtual void set_params(const vector<cytoParam> & _params, bool force = false);
                     ^
In file included from RcppExports.cpp:4:
In file included from ./../inst/include/CytoML.h:5:
In file included from ../inst/include/CytoML/openWorkspace.hpp:12:
../inst/include/CytoML/winFlowJoWorkspace.hpp:433:30: warning: '/*' within block comment [-Wcomment]
           * "*[local-name()='edge']/*[local-name()='vertex']" is for ellipsoidGate
                                    ^
2 warnings generated.
clang++ -std=gnu++14 -I"/Library/Frameworks/R.framework/Resources/include" -DNDEBUG -DROUT -I../inst/include/ -I/usr/include/libxml2 -ftemplate-depth=900 -DBOOST_NO_AUTO_PTR -Wno-unknown-pragmas -Wno-comment  -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rcpp/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/BH/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RProtoBufLib/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/cytolib/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/Rhdf5lib/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppArmadillo/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/RcppParallel/include' -I'/Library/Frameworks/R.framework/Versions/4.0/Resources/library/flowWorkspace/include' -isysroot /Library/Developer/CommandLineTools/SDKs/MacOSX.sdk -I/usr/local/include   -fPIC  -Wall -g -O2  -c parseFlowJoWorkspace.cpp -o parseFlowJoWorkspace.o
In file included from parseFlowJoWorkspace.cpp:9:
In file included from ../inst/include/CytoML/openWorkspace.hpp:11:
In file included from ../inst/include/CytoML/macFlowJoWorkspace.hpp:10:
In file included from ../inst/include/CytoML/flowJoWorkspace.hpp:13:
/Library/Frameworks/R.framework/Versions/4.0/Resources/library/cytolib/include/cytolib/H5CytoFrame.hpp:47:7: warning: 'cytolib::H5CytoFrame::set_params' hides overloaded virtual function [-Woverloaded-virtual]
        void set_params(const vector<cytoParam> & _params)
             ^
/Library/Frameworks/R.framework/Versions/4.0/Resources/library/cytolib/include/cytolib/CytoFrame.hpp:115:15: note: hidden overloaded virtual function 'cytolib::CytoFrame::set_params' declared here: different number of parameters (2 vs 1)
        virtual void set_params(const vector<cytoParam> & _params, bool force = false);
                     ^
In file included from parseFlowJoWorkspace.cpp:9:
In file included from ../inst/include/CytoML/openWorkspace.hpp:12:
../inst/include/CytoML/winFlowJoWorkspace.hpp:433:30: warning: '/*' within block comment [-Wcomment]
           * "*[local-name()='edge']/*[local-name()='vertex']" is for ellipsoidGate
                                    ^
2 warnings generated.
clang++ -std=gnu++14 -dynamiclib -Wl,-headerpad_max_install_names -undefined dynamic_lookup -single_module -multiply_defined suppress -L/Library/Frameworks/R.framework/Resources/lib -L/usr/local/lib -o CytoML.so RcppExports.o parseFlowJoWorkspace.o -L/Library/Frameworks/R.framework/Resources/lib -lRlapack -L/Library/Frameworks/R.framework/Resources/lib -lRblas -L/usr/local/gfortran/lib/gcc/x86_64-apple-darwin15/6.1.0 -L/usr/local/gfortran/lib -lgfortran -lquadmath -lm -lxml2 -lz -lpthread -licucore -lm -F/Library/Frameworks/R.framework/.. -framework R -Wl,-framework -Wl,CoreFoundation
installing to /Library/Frameworks/R.framework/Versions/4.0/Resources/library/00LOCK-CytoML/00new/CytoML/libs
** R
** inst
** byte-compile and prepare package for lazy loading
Warning: replacing previous import ‘ncdfFlow::filter’ by ‘dplyr::filter’ when loading ‘CytoML’
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
Warning: replacing previous import ‘ncdfFlow::filter’ by ‘dplyr::filter’ when loading ‘CytoML’
** checking absolute paths in shared objects and dynamic libraries
** testing if installed package can be loaded from final location
Warning: replacing previous import ‘ncdfFlow::filter’ by ‘dplyr::filter’ when loading ‘CytoML’
** testing if installed package keeps a record of temporary installation path
* DONE (CytoML)

R Under development (unstable) (2019-12-14 r77572) -- "Unsuffered Consequences"
Copyright (C) 2019 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin15.6.0 (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(CytoML)
Warning message:
replacing previous import 'ncdfFlow::filter' by 'dplyr::filter' when loading 'CytoML' 
> 
> 
> test_check("CytoML")
As part of improvements to flowWorkspace, some behavior of
GatingSet objects has changed. For details, please read the section
titled "The cytoframe and cytoset classes" in the package vignette:

  vignette("flowWorkspace-Introduction", "flowWorkspace")
Loading required package: ggplot2
Loading required package: ncdfFlow
Loading required package: RcppArmadillo
Loading required package: BH
Failed to use spillover/spectrum matrix Spill_defaultCompensation for compensated parameter FSC-A. It seems that the matrix was not properly defined in the Gating-ML file.

Failed to use spillover/spectrum matrix Spill_defaultCompensation for compensated parameter FSC-H. It seems that the matrix was not properly defined in the Gating-ML file.

Failed to use spillover/spectrum matrix Spill_defaultCompensation for compensated parameter FSC-A. It seems that the matrix was not properly defined in the Gating-ML file.

Failed to use spillover/spectrum matrix Spill_defaultCompensation for compensated parameter SSC-A. It seems that the matrix was not properly defined in the Gating-ML file.

Failed to use spillover/spectrum matrix Spill_defaultCompensation for compensated parameter FSC-A. It seems that the matrix was not properly defined in the Gating-ML file.

══ testthat results  ═══════════════════════════════════════════════════════════
[ OK: 58 | SKIPPED: 3 | WARNINGS: 68 | FAILED: 0 ]
> 
> #devtools::test()
> 
> # test_file("~/rglab/workspace/CytoML/tests/testthat/flowjo2gs_internalTestSuite.R")
> # test_file("~/rglab/workspace/CytoML/tests/testthat/Cytobank2GatingSet-InternalTestSuite.R")
> # test_file("~/rglab/workspace/CytoML/tests/testthat/GatingSet2flowJo-InternalTestSuite.R")
> # test_file("~/rglab/workspace/CytoML/tests/testthat/diva2gs-InternalTestSuite.R")
> # test_file("~/rglab/workspace/CytoML/tests/testthat/test-cytobank.R")
> # test_file("~/rglab/workspace/CytoML/tests/testthat/test-diva2gs.R")
> # test_file("~/rglab/workspace/CytoML/tests/testthat/test-extend.R")
> # test_file("~/rglab/workspace/CytoML/tests/testthat/test-GatingSet2flowJo.R")
> # test_file("~/rglab/workspace/CytoML/tests/testthat/test-flowjo2gs.R")
> 
> proc.time()
   user  system elapsed 
203.883  70.039 124.473 

name	user	system	elapsed
CytoML.par.get	0.002	0.001	0.003
cytobank_to_gatingset	0.000	0.000	0.001
extend	0.492	0.201	0.381
fj_ws_get_keywords	0.001	0.001	0.001
fj_ws_get_sample_groups	0.001	0.000	0.001
fj_ws_get_samples	0.001	0.001	0.001
flowjo_to_gatingset	0.003	0.002	0.001
flowjo_workspace-class	0.203	0.141	0.137
gatingset_to_cytobank	4.336	0.343	4.701
gatingset_to_flowjo	0.001	0.001	0.001
getChildren-graphGML-character-method	0.001	0.000	0.001
getNodes-graphGML-method	0.000	0.000	0.001
gs_compare_cytobank_counts	17.000	5.158	8.716
open_diva_xml	0.001	0.001	0.001
open_flowjo_xml	0.001	0.001	0.001
plot-graphGML-missing-method	0.002	0.001	0.001
range.GatingHierarchy	0.002	0.001	0.001
read.gatingML.cytobank	0.001	0.001	0.001