NEWS.md

In pasturm/TofDaqR: R Interface to the TOFWERK TofDaq API

Changes in version 0.3.11

• Fixed a bug in GetTofDataSinglePeak().

• FitTofDataSinglePeak() can also fit single spectra (and not only the averaged spectrum).

• Added TwToolDll functions DecomposeMass(), DecomposeMass2(), MatchSpectra().

• Fixed a bug in H5SetMassCalibDynamic().

• Added sample index axis to the output of GetTofDataSinglePeak() and FitTofDataSinglePeak().

• Fixed reading the description in GetRegUserDataFromH5().

• Updated help pages of GetSegmentProfileFromH5(), GetBufWriteProfileFromH5(), ContinueAcquisition() and ManualContinueNeeded().

• Replaced HTTP links with HTTPS.

• New TofDaq API versions are no longer hosted on https://soft.tofwerk.com/. Therefore, the API libraries are downloaded from https://github.com/pasturm/TofDaqR/blob/master/TofDaqAPI/.

• Updated to TofDaq API 1.99r1369.

• Removed GitHub Actions workflows.

• Removed the binary version for macOS. The package can still be installed from source on Intel-based Macs. Unfortunately, TofDaq API libraries are not available for ARM-based processors.

• Added TofDaqDll functions DioStartDelayActive(), SendDioStartSignal(), WaitingForDioStartSignal(), SaturationWarning(), ConfigureForSingleIonMeasurement(), TpsLoadSetFile2(), TpsSaveSetFileRc(), TpsGetNmtState(), TpsSetNmtState(), TpsGetModuleProperties().

Changes in version 0.3.10

• Fixed a bug, where the initialization of char arrays could cause R to crash in some versions of R (regression from TofDaqR version 0.3.9).

• Using GitHub Actions instead of Travis CI for continuous integration.

Changes in version 0.3.9

• DeleteAttributeInH5(), WaitForExclusiveFileAccess() and WriteNetCdfTimeSeriesFile() are missing in libtwh5 of TofDaq API 1.99r759 (Mac and Linux), causing package installation on non-Windows systems to fail. Removed these functions for non-Windows installations.

• The TofDaq API libraries are not included any more in the source package, but downloaded from https://soft.tofwerk.com/ during installation.

• Added a binary version for Mac.

• Updated the source installation instructions to account for the changes in devtools >= 2.0.0.

• Internal changes for simpler source installations on Mac and Linux.

• Using Travis CI.

• Moved the links to the API documentation from a vignette to a help file.

• Simplified the cross-platform maintenance: the TofDaqDll functions are always exported, but they just give an error message on non-Windows platforms.

• Turned off staged installation (a feature of R >= 3.6.0) to be able to dynamically link to the TofDaq libraries.

• Updated help pages of GetIsotopePattern() and GetIsotopePattern2().

• GetStringAttributeFromH5() can also read strings which are longer than 256 characters.

Changes in version 0.3.8

• GetEventListSpectrumFromH5() returns a zero length vector instead of an error if there is no event in the spectrum.

• DecodeEventList() also works for events with more than 256 data samples.

• Updated to TofDaq API 1.99r759.

• Added TofDaqDll functions ConfigVarNbrMemories(), ContinueAcquisition(), ManualContinueNeeded(), IssueDio4Pulse(), SetDio4State(), GetSumSpectrumFromShMem2(), GetTofSpectrumFromShMem2(), GetStickSpectrumFromShMem2(), GetSegmentProfileFromShMem2(), GetMassCalib(), GetMassCalib2(), GetMassCalibEx(), GetMassCalib2Ex(), SetMassCalib(), SetMassCalib2(), SetMassCalibEx(), SetMassCalib2Ex().

• Added TwToolDll functions MultiPeakFit(), EvalMultiPeak(), GetMassCalibInfo(), FitResolution(), EvalResolution().

• Added TwH5Dll functions H5AddUserDataMultiRow(), DeleteAttributeInH5(), WaitForExclusiveFileAccess(), WriteNetCdfTimeSeriesFile(), H5SetMassCalib(), H5SetMassCalib2(), H5SetMassCalibEx(), H5SetMassCalib2Ex(), H5SetMassCalibDynamic(), ChangePeakTable(), ChangePeakTableFromFile().

• Corrected bug in functions which have an array of strings as an input parameter.

• Using NEWS.md format for this NEWS file.

Changes in version 0.3.7

• Corrected bug in DecodeEventList().

• Added Authors@R, URL and BugReports fields in DESCRIPTION, removed Date field.

• Corrected and improved documentation.

• Added vignette that links to the API documentation files.

• Removed the macos_i386 TofDaq libraries.

Changes in version 0.3.6

• Corrected cstring to std::string conversion bug in GetRegUserData...() functions.

• Corrected off-by-one bug in GetPeakParametersFromH5().

• Corrected bug in configure script (Mac and Linux version).

Changes in version 0.3.5

• Updated configure script to work with Rcpp >=0.12.12.

• Updated README.md with easier installation instructions.

• Updated to TofDaq API 1.99r601.

• Corrected bug in GetUserDataFromH5() and added the option to read all rows.

Changes in version 0.3.4

• Corrected bug in configure.win script which made source package installation on 32-bit Windows to fail.

Changes in version 0.3.3

• Corrected bugs in LoadIniFile() and SaveIniFile().

• Corrected bug in configure script (Mac and Linux version).

• Added wrapper functions GetTofDataSinglePeak() and FitTofDataSinglePeak().

Changes in version 0.3.2

• Corrected bug in internal std::string to char* conversion (introduced in TofDaqR 0.3.0).

• Using Rcpp::stop() to signal errors if TwRetVal != TwSuccess.

• Corrected bug in CleanupDll().

• Updated some help pages.

Changes in version 0.3.1

• GetDescriptor() returns int64 and uint64 values as strings.

• AddLogEntry() also accepts the LogEntryTime parameter.

• Added additional API functions (all GetDaqParameter...(), SetDaqParameter...() and Set...AttributeInH5() functions, H5AddLogEntry(), H5GetMassCalibPar(), GetBufWriteProfileFromH5())

Changes in version 0.3.0

• Another major code refactoring: Rcpp is used for all C/C++ code.

• Added all Get...2FromH5() functions.

Changes in version 0.2.0

• Updated to TofDaq API 1.99r450.

• NAMESPACE generated by roxygen2::roxygenise().

• Major refactoring of the package: TofDaqWrapR.dll is not any more compiled with Visual Studio. Instead, the C++ source files of the C++/R wrapper are included in the package source and compiled with the GCC compiler. This makes package maintenance easier and allows the same workflow for all platforms.

• TofDaqR can also be installed on Linux and Mac (for using the twtool and twh5 functions)!

Changes in version 0.1.7

• Removed dependency on Rcpp package by moving DecodeEventList() and EventList2TofSpec() to TofDaqWrapR.dll.

Changes in version 0.1.6

• Corrected bug when package was unloaded.

• Some general code improvements in TofDaqWrapR.dll.

• DecodeEventList() now returns sample indices instead of time stamps.

• Updated some help pages.

• Published TofDaqR to GitHub: https://github.com/pasturm/TofDaqR

Changes in version 0.1.5

• Updated to TofDaq API 1.98.

• Added GetRegUserDataSourcesFromH5().

Changes in version 0.1.4

• Extended Tof2Mass() and Mass2Tof() to work with vectors as first argument.

• Added InitializeDll().

• Updated some help pages.

• Corrected minor bug in CleanupDll() and SetTimeout() (no return value instead of NULL).

• Added undocumented option of histogram-based noise determination in SiSetProcessingOptions().

• Added ReleaseSharedMemory() and KeepSharedMemMapped().

• Added additional TPS1 codes in Tps1rc.

Changes in version 0.1.3

• Added all single ion histogramming functions (Si...) of TwToolDll. Additionally, SiProcessSpectrumFromShMem() takes the spectrum directly from shared memory.

• Updated some help pages.

• Corrected bug in GetPeakParameters() (label was always empty).

• Added SaveMassTableToFile() function, which saves all peak parameters to a mass table file.

Changes in version 0.1.2

• Renamed all functions, i.e. the Tw (and Tx) has been removed. (This is a breaking change, but because this package has currently no users (except the author), it doesn't matter ;-).

• Using NEWS (so that news(package = "TofDaqR") works) instead of markdown format NEWS/NEWS.md.

Changes in version 0.1.1

• Made DESCRIPTION to work in RStudio (description field is longer).

• Corrected some bugs in documentation.

• Does not unload TofDaqWrapR.dll when package is unloaded. This prevents some R crashes when package is unloaded.

• Added TwMassCalibrate().

• Added this NEWS file.

• Updated TwLoadIniFile() and TwSaveIniFile() to accept an empty string as an argument (-> "TwApiTmpIni.ini").

• Corrected bug in TwGetDescriptor() (character parameters were not read correctly).

• Added TxTps1rc, a data frame giving the codes and names of some TPS modules.

• Added TwGetRegUserDataSources() and TwGetRegUserDataDesc().

• Corrected the reading of the data description in TwGetRegUserDataFromH5() and TwGetUserDataFromH5().

Changes in version 0.1.0

• First release of TofDaqR as a package.

• TofDaq API 1.97.

pasturm/TofDaqR documentation built on March 29, 2024, 12:10 a.m.