A set of codes for csv and for spectrum manipulation.
List:
- threshold.cpp: remove lines below a threshold
- trim.cpp: cut a spectrum or more between two wavelengths
- findncopy.cpp: find and copy files from a file list
- der_snr.cpp: compute the Signal-to-Noise of a spectrum
- shift.cpp: shift whole spectrum by a given wavelength
- gen_rand_spec.cpp: generate a set of randomized-flux spectra
- marker.cpp: highlight lines on spectrum with matplotlib
- elemlist.cpp: fill elemlist interactively
- waverage.cpp: compute average of spectra from FITS weighted by the SNR or the exposition time
TODO:
- waverage: peak detection for SG
- waverage: optimize _op::remove_zero()
- waverage: optimize _op::resize_spectr()
- waverage: optimize _op::SG_conv()
- waverage: user should provide the step ?
- der_snr: segfault when blank rows are added
- test_marker.cpp: error: in "SetXmin_float": check rMarker.set_xmin(static_cast(0.)) has failed
- ncurses elemlist
- msg.h: Fix _msg::_msg(const _msg&)
- boost::copy recursive directory
Dependencies:
-
gcc >= 7 or clang >= 5
-
CMake
-
Boost >= 1.40
-
Boost::program_options
-
Boost::spirit
-
Boost::tokenizer
-
Boost::unit_test_framework
-
Boost::algorithm
-
python: matplotlib, numpy, csv (marker)
-
CCfits / CFITSIO (waverage)
-
Eigen3 (waverage)
-
GTK2.0 (optional)
-
libnotify (optional)
marker
gentoo - spec_tools/ % ./marker -h
Usage:
-h [ --help ] Display this help message
-i [ --input ] arg Set input files.
-s [ --sep ] arg Set separators. If more than one sep is
defined, the number of sep must be equal to the
numbers of files.
-o [ --output ] arg Set the output.
-t [ --title ] arg Set the title.
-l [ --label ] arg Set labels. If more than one label is defined,
the number of labels must be equal to the
numbers of files.
--xmin arg Set the min range.
--xmax arg Set the max range.
--ymin arg Set ymin.
--ymax arg Set ymax...
--xlabel arg Set xlabel.
--ylabel arg Set ylabel.
--xunit arg Set xunit.
--yunit arg Set yunit.
--width arg (=0.25) Set the width of curves.
--rgb arg Set the color of the first spectrum as
RGBalpha: '#rrggbbaa'.
--contsize arg (=0.600000024) Set the continuum width.
--nolegend Disable the legend.
--halfbox Show only left and bottom axis.
--dotted Dotted curve.
--dotdashed Dot-dashed curve.
--fontsize arg Set the font size.
--wide Indicate if markers have to be adapted to the
spectrum size.
-e [ --element ] arg Set the name of an element. Ex: \$H\\\\beta\$.
-w [ --wavelength ] arg Set the wavelength of the line.
--elemlist arg Set the line list:
'Elem 1', wavelength_1
'Elem 2', wavelength_2
! 'Elem 3 bold', wavelength_3
@! 'Elem 3 unbold',wavelength_3
# blabla (comment)
% blablabla (comment again)
...
--shiftfirst arg Shift the first spectrum.
--shift arg Shift spectra (except the first).
-g [ --grid ] Show the grid.
--dpi arg (=300) Set the dpi.
--nolog Toggle off log.
-v [ --verbose ] Toggle verbosity.
Example:
./marker -i rand_spectra/0/0.dat -i rand_spectra/0/1.dat -l 0.dat -l 1.dat -t Spectra -l 'Spectrum 1' -l 'Spectrum 2' -w 4861 -e \$H\\beta\$ --nolog
▶ marker
⚐ marker write history
⚐ marker remove duplicates in history
⚐ marker check command line and fill class
⚐ marker set input: rand_spectra/0/0.dat with sep:' '
⚐ marker set input: rand_spectra/0/1.dat with sep:' '
⚐ marker data read and stored
⚐ marker set data to plot
⚐ marker set plot options
⚐ marker write and run script
⚐ marker 3.052816s wall, 2.760000s user + 0.070000s system = 2.830000s CPU (92.7%)
findncopy
gentoo - spec_tools/ % ./findncopy -h
Usage:
-h [ --help ] Display this help message
-n [ --namelist ] arg Filename of the list of name to find
-i [ --i_folder ] arg Name of the folder where original data are
-o [ --o_folder ] arg (=data_out) Name of the folder where files will be
copied
-e [ --exclude ] arg Exclude files matching the string
Example:
% ls
data findncopy star_list.txt
# cat star_list.txt
HD87205
HD87309
HD304836
CPD-591662
...
% ./findncopy -n star_list.txt -i data -o spectra -e sky
▶ findncopy
⚐ findncopy write history
⚐ findncopy remove duplicates in history
⚐ parsing file: 36 lines
⚐ searching file: 240 files found
⚐ erasing string: 'data'
⚐ creating directory list: done
⚐ creating folders: done
⚐ copying files: 174 files copied
⚐ findncopy: 0.176172s wall, 0.130000s user + 0.040000s system = 0.170000s CPU (96.5%)
trim
gentoo - spec_tools/ % ./trim -h
Usage:
-h [ --help ] Display this help message
-l [ --min ] arg Minimum wavelength
-u [ --max ] arg Maximum wavelength
-i [ --input_folder ] arg Name of the folder where original data
are
-o [ --output_folder ] arg (=data_out)
Set the directory where store new data.
Example:
% ./trim -l 4700 -u 4800 -i data -o spectra_trimmed
▶ trim
⚐ trim write history
⚐ trim remove duplicates in history
⚐ trim CPU utilization: 3 %
⚐ trim: starting 8 async threads
⚡ trim(2416052): 521 files parsed.
⚡ trim(2416051): 521 files parsed.
⚡ trim(2416054): 521 files parsed.
⚡ trim(2416053): 521 files parsed.
⚡ trim(2416055): 521 files parsed.
⚡ trim(2416050): 521 files parsed.
⚡ trim(2416056): 521 files parsed.
⚡ trim(2416057): 524 files parsed.
⚐ trim: 52.909230s wall, 296.410000s user + 0.710000s system = 297.120000s CPU (561.6%)
threshold
gentoo - spec_tools/ % ./threshold -h
Usage:
-h [ --help ] Display this help message
-i [ --input_folder ] arg Set the input directory.
-o [ --output_folder ] arg (=data_out)
Set the directory where set the
threshold.
-t [ --threshold ] arg Apply a threshold in all 2D spectrum
data.
f<=threshold will be deleted.
Example:
% ./threshold -i data -o spectra -t 0
▶ threshold
⚐ threshold write history
⚐ threshold remove duplicates in history
⚐ genrandspec CPU utilization: 0 %
⚐ threshold: starting 8 async threads
⚡ trim(2470785): 521 files parsed.
⚡ trim(2470786): 521 files parsed.
⚡ trim(2470787): 521 files parsed.
⚡ trim(2470784): 521 files parsed.
⚡ trim(2470783): 521 files parsed.
⚡ trim(2470788): 521 files parsed.
⚡ trim(2470789): 521 files parsed.
⚡ trim(2470790): 524 files parsed.
⚐ threshold: 57.269018s wall, 331.160000s user + 1.350000s system = 332.510000s CPU (580.6%)
der_snr
gentoo - spec_tools/ % ./der_snr -h
Usage:
-h [ --help ] Display this help message
-f [ --filename ] arg Filename of the spectrum
-d [ --directory ] arg Directory where compute the S/N
-o [ --output ] arg (=output.csv) Filename of results
-s [ --separator ] arg (= ) The column separator. Do not set this
option for \tab.
-e [ --exclude ] arg Exclude a string in filenames
Examples:
% ./der_snr -f CPD-591792.obs
- CPD-591792.obs: S/N = 95.68
% ./der_snr -d data -o snr.csv
▶ der_snr
⚐ der_snr write history
⚐ der_snr remove duplicates in history
⚐ der_snr check command line
⚐ genrandspec CPU utilization: 1 %
⚐ der_snr starting 8 async threads
⚡ compute(321893): compute S/N for 521 files
⚡ compute(321894): compute S/N for 521 files
⚡ compute(321895): compute S/N for 521 files
⚡ compute(321896): compute S/N for 521 files
⚡ compute(321897): compute S/N for 521 files
⚡ compute(321898): compute S/N for 521 files
⚡ compute(321900): compute S/N for 524 files
⚡ compute(321899): compute S/N for 521 files
⚐ merge() merge file part1_snr.csv
⚐ merge() merge file part2_snr.csv
⚐ merge() merge file part3_snr.csv
⚐ merge() merge file part4_snr.csv
⚐ merge() merge file part5_snr.csv
⚐ merge() merge file part6_snr.csv
⚐ merge() merge file part7_snr.csv
⚐ merge() merge file part8_snr.csv
⚐ der_snr output: snr.csv
⚐ der_snr 55.801060s wall, 321.340000s user + 0.210000s system = 321.550000s CPU (576.2%)
Ref:
F. Stoehr et al: DER_SNR: A Simple & General Spectroscopic Signal-to-Noise Measurement Algorithm
394, Astronomical Data Analysis Software and Systems (ADASS) XVII
2008ASPC..394..505S
shift
gentoo - spec_tools/ % ./shift -h
Usage:
-h [ --help ] Display this help message
-w [ --wavelength ] arg Wavelength
-f [ --filename ] arg Shift a single file
-i [ --input_folder ] arg Name of the folder where original data are
-o [ --output ] arg (=data_out) Set the directory or the file where store new
data.
-s [ --separator ] arg (= ) The column separator. Do not set this option
for \tab.
Example:
% ./shift -w -1.0 -f CD-592728.obs
▶ shift
⚐ shift: check command line
⚐ shift: shift the spectrum by -1
⚐ shift: output: data_out
⚐ shift: 0.043272s wall, 0.040000s user + 0.000000s system = 0.040000s CPU (92.4%)
genrandspec
gentoo - spec_tools/ % ./genrandspec -h
Usage:
-h [ --help ] Display this help message
-l [ --minw ] arg (=4000) Lower wavelength bound
-u [ --maxw ] arg (=8000) Upper wavelength bound
-s [ --step ] arg (=0.0500000007) Difference between two neighbored
wavelengths
-o [ --output ] arg (=rand_spectra) Filename of folder results
-s [ --separator ] arg (= ) The column separator. Do not set this
option for \tab.
Example:
./genrandspec -l 4500 -u 4600
▶ genrandspec
⚐ genrandspec write history
⚐ genrandspec remove duplicates in history
⚐ genrandspec check command line
⚐ genrandspec CPU utilization: 3 %
⚐ genrandspec create 8 folders
⚐ genrandspec start 8 async threads
⚡ run(686277): create spectra in rand_spectra/0
⚡ run(686278): create spectra in rand_spectra/1
⚡ run(686279): create spectra in rand_spectra/2
⚡ run(686280): create spectra in rand_spectra/3
⚡ run(686281): create spectra in rand_spectra/4
⚡ run(686282): create spectra in rand_spectra/5
⚡ run(686283): create spectra in rand_spectra/6
⚡ run(686284): create spectra in rand_spectra/7
⚐ genrandspec 0.160590s wall, 1.070000s user + 0.000000s system = 1.070000s CPU (666.5%)
elemlist
./elemlist -h
Usage:
-h [ --help ] Display this help message
-l [ --list ] arg (=line.list) Filename of elemlist
-e [ --elem ] arg The element.
-w [ --wavelength ] arg The wavelength.
-M [ --Mask ] Comment the line: #
-B [ --Bold ] Highlight the line: !
-T [ --Temp ] Temporary comment: % or @!
./elemlist -e "Fe II" -w 5001.59 -B
▶ elemlist
⚐ elemlist write history
⚐ elemlist remove duplicates in history
⚐ elemlist add: Fe II 5001.59
⚐ elemlist 0.001048s wall, 0.000000s user + 0.000000s system = 0.000000s CPU (n/a%)
TODO:
waverage
./waverage
******************************
* Weighted arithmetic mean *
******************************
- read__fits_dir(): start reading fits in the directory.
-> flushing previous data... done.
-> creating the sorted list of files... done.
-> reading fits ./data/GIRAFFE_fits/ADP.2019-01-30T19:52:54.739.fits... (SNR) (FLUX_REDUCED) (SNR_REDUCED) done.
-> filling vector... 4960 rows done.
-> spectrum stacked.
-> reading fits ./data/GIRAFFE_fits/ADP.2019-01-30T19:52:54.740.fits... (SNR) (FLUX_REDUCED) (SNR) done.
-> filling vector... 4960 rows done.
-> spectrum stacked.
-> reading fits ./data/GIRAFFE_fits/ADP.2019-01-30T19:52:54.741.fits... (SNR) (FLUX_REDUCED) (SNR) done.
-> filling vector... 4960 rows done.
-> spectrum stacked.
-> reading fits ./data/GIRAFFE_fits/ADP.2019-01-30T19:52:54.742.fits... (SNR) (FLUX_REDUCED) (SNR) done.
-> filling vector... 4960 rows done.
-> spectrum stacked.
-> reading fits ./data/GIRAFFE_fits/ADP.2019-01-30T20:53:18.821.fits... (SNR) (FLUX_REDUCED) (SNR_REDUCED) done.
-> filling vector... 4960 rows done.
-> spectrum stacked.
-> reading fits ./data/GIRAFFE_fits/ADP.2019-01-30T20:53:18.822.fits... (SNR) (FLUX_REDUCED) (SNR) done.
-> filling vector... 4960 rows done.
-> spectrum stacked.
-> reading fits ./data/GIRAFFE_fits/ADP.2019-01-30T20:53:18.823.fits... (SNR) (FLUX_REDUCED) (SNR) done.
-> filling vector... 4960 rows done.
-> spectrum stacked.
-> reading fits ./data/GIRAFFE_fits/ADP.2019-01-30T20:53:18.824.fits... (SNR) (FLUX_REDUCED) (SNR) done.
-> filling vector... 4960 rows done.
-> spectrum stacked.
- read_fits_dir(): all done.
- set_WaveScale().
-> multiplying wavelengths by 10... done.
- get_valarrays(): start converting vectors to valarrays
-> initializing arrays... done.
-> filling array with 3 columns... done.
-> filling array with 3 columns... done.
-> filling array with 3 columns... done.
-> filling array with 3 columns... done.
-> filling array with 3 columns... done.
-> filling array with 3 columns... done.
-> filling array with 3 columns... done.
-> filling array with 3 columns... done.
-> total: 8 arrays done.
- _op(): Initialisation with spectra assuming structure:
-> (WAVE) (FLUX) (SNR)
-> (WAVE) (FLUX) (SNR)
-> (WAVE) (FLUX) (SNR)
-> (WAVE) (FLUX) (SNR)
-> (WAVE) (FLUX) (SNR)
-> (WAVE) (FLUX) (SNR)
-> (WAVE) (FLUX) (SNR)
-> (WAVE) (FLUX) (SNR)
- remove_zero():
-> removing 0 from spectrum 0
-> size before: (4960, 4960, 4960).
-> size after: (4868, 4868).
-> removing 0 from spectrum 1
-> size before: (4960, 4960, 4960).
-> size after: (4868, 4868).
-> removing 0 from spectrum 2
-> size before: (4960, 4960, 4960).
-> size after: (4868, 4868).
-> removing 0 from spectrum 3
-> size before: (4960, 4960, 4960).
-> size after: (4868, 4868).
-> removing 0 from spectrum 4
-> size before: (4960, 4960, 4960).
-> size after: (4869, 4869).
-> removing 0 from spectrum 5
-> size before: (4960, 4960, 4960).
-> size after: (4869, 4869).
-> removing 0 from spectrum 6
-> size before: (4960, 4960, 4960).
-> size after: (4869, 4869).
-> removing 0 from spectrum 7
-> size before: (4960, 4960, 4960).
-> size after: (4869, 4869).
-> remove_zero(): all done.
- resize_spectr().
-> get best support
. -> get the minimum iDimension: 4868 .
-> resizing spectrum 0: 4868 -> 4868.
-> resizing spectrum 1: 4868 -> 4868.
-> resizing spectrum 2: 4868 -> 4868.
-> resizing spectrum 3: 4868 -> 4868.
-> resizing spectrum 4: 4869 -> 4868.
-> resizing spectrum 5: 4869 -> 4868.
-> resizing spectrum 6: 4869 -> 4868.
-> resizing spectrum 7: 4869 -> 4868.
-> resize_spectr(): all done.
- rebuild_wlStep(): start rebuilding support.
-> rebuilding with new step for spectrum 0: 0.05 for [5835.1, 5591.76] ... done.
-> size is: (4867, 4867).
-> rebuilding with new step for spectrum 1: 0.05 for [5835.1, 5591.76] ... done.
-> size is: (4867, 4867).
-> rebuilding with new step for spectrum 2: 0.05 for [5835.1, 5591.76] ... done.
-> size is: (4867, 4867).
-> rebuilding with new step for spectrum 3: 0.05 for [5835.1, 5591.76] ... done.
-> size is: (4867, 4867).
-> rebuilding with new step for spectrum 4: 0.05 for [5835.14, 5591.8] ... done.
-> size is: (4867, 4867).
-> rebuilding with new step for spectrum 5: 0.05 for [5835.14, 5591.8] ... done.
-> size is: (4867, 4867).
-> rebuilding with new step for spectrum 6: 0.05 for [5835.14, 5591.8] ... done.
-> size is: (4867, 4867).
-> rebuilding with new step for spectrum 7: 0.05 for [5835.14, 5591.8] ... done.
-> size is: (4867, 4867).
-> rebuild_wlStep(): all done.
- filter_SG(): filtering all spectra.
- filter_SG(): filtering spectrum 0 with Savitzky-Golay algorithm.
-> set polynomial degree: 12 and window size: 500 values or 25 Å.
-> computing... done.
- filter_SG(): filtering spectrum 1 with Savitzky-Golay algorithm.
-> set polynomial degree: 12 and window size: 500 values or 25 Å.
-> computing... done.
- filter_SG(): filtering spectrum 2 with Savitzky-Golay algorithm.
-> set polynomial degree: 12 and window size: 500 values or 25 Å.
-> computing... done.
- filter_SG(): filtering spectrum 3 with Savitzky-Golay algorithm.
-> set polynomial degree: 12 and window size: 500 values or 25 Å.
-> computing... done.
- filter_SG(): filtering spectrum 4 with Savitzky-Golay algorithm.
-> set polynomial degree: 12 and window size: 500 values or 25 Å.
-> computing... done.
- filter_SG(): filtering spectrum 5 with Savitzky-Golay algorithm.
-> set polynomial degree: 12 and window size: 500 values or 25 Å.
-> computing... done.
- filter_SG(): filtering spectrum 6 with Savitzky-Golay algorithm.
-> set polynomial degree: 12 and window size: 500 values or 25 Å.
-> computing... done.
- filter_SG(): filtering spectrum 7 with Savitzky-Golay algorithm.
-> set polynomial degree: 12 and window size: 500 values or 25 Å.
-> computing... done.
- filter_SG(): all done.
- compute_wmean(): computing weighted mean.
-> Number of spectra: 8.
-> Number of rows: 4867.
-> Computing... done.
-> <SNR>=11.2505.
-> Size of the result: (4867, 4867).
-> compute_wmean(): all done.
- set_data(): setting data.
-> clear data.
-> copy spectrum 0(SNR)... done.
-> copy spectrum 1(SNR)... done.
-> copy spectrum 2(SNR)... done.
-> copy spectrum 3(SNR)... done.
-> copy spectrum 4(SNR)... done.
-> copy spectrum 5(SNR)... done.
-> copy spectrum 6(SNR)... done.
-> copy spectrum 7(SNR)... done.
-> set_data(): all done.
- write(): start writing all spectra in './converted'.
- write(): writing ./data/GIRAFFE_fits/ADP.2019-01-30T19:52:54.739.fits.
-> ./data/GIRAFFE_fits/ADP.2019-01-30T19:52:54.739.fits.csv opened.
-> deleting previous file converted/ADP.2019-01-30T19:52:54.739.fits.csv... done.
-> moving file... done.
- write(): writing ./data/GIRAFFE_fits/ADP.2019-01-30T19:52:54.740.fits.
-> ./data/GIRAFFE_fits/ADP.2019-01-30T19:52:54.740.fits.csv opened.
-> deleting previous file converted/ADP.2019-01-30T19:52:54.740.fits.csv... done.
-> moving file... done.
- write(): writing ./data/GIRAFFE_fits/ADP.2019-01-30T19:52:54.741.fits.
-> ./data/GIRAFFE_fits/ADP.2019-01-30T19:52:54.741.fits.csv opened.
-> deleting previous file converted/ADP.2019-01-30T19:52:54.741.fits.csv... done.
-> moving file... done.
- write(): writing ./data/GIRAFFE_fits/ADP.2019-01-30T19:52:54.742.fits.
-> ./data/GIRAFFE_fits/ADP.2019-01-30T19:52:54.742.fits.csv opened.
-> deleting previous file converted/ADP.2019-01-30T19:52:54.742.fits.csv... done.
-> moving file... done.
- write(): writing ./data/GIRAFFE_fits/ADP.2019-01-30T20:53:18.821.fits.
-> ./data/GIRAFFE_fits/ADP.2019-01-30T20:53:18.821.fits.csv opened.
-> deleting previous file converted/ADP.2019-01-30T20:53:18.821.fits.csv... done.
-> moving file... done.
- write(): writing ./data/GIRAFFE_fits/ADP.2019-01-30T20:53:18.822.fits.
-> ./data/GIRAFFE_fits/ADP.2019-01-30T20:53:18.822.fits.csv opened.
-> deleting previous file converted/ADP.2019-01-30T20:53:18.822.fits.csv... done.
-> moving file... done.
- write(): writing ./data/GIRAFFE_fits/ADP.2019-01-30T20:53:18.823.fits.
-> ./data/GIRAFFE_fits/ADP.2019-01-30T20:53:18.823.fits.csv opened.
-> deleting previous file converted/ADP.2019-01-30T20:53:18.823.fits.csv... done.
-> moving file... done.
- write(): writing ./data/GIRAFFE_fits/ADP.2019-01-30T20:53:18.824.fits.
-> ./data/GIRAFFE_fits/ADP.2019-01-30T20:53:18.824.fits.csv opened.
-> deleting previous file converted/ADP.2019-01-30T20:53:18.824.fits.csv... done.
-> moving file... done.
- write(): all done.
- write_mean(): writing result in wmean.dat.
-> done.
- flushing data... done.
Download:
gentoo - /home/gentoo % git clone https://github.com/a-lemonnier/spec_tools.git
Clonage dans 'spec_tools'...
remote: Enumerating objects: 29, done.
remote: Counting objects: 100% (29/29), done.
remote: Compressing objects: 100% (17/17), done.
remote: Total 384 (delta 10), reused 22 (delta 8), pack-reused 355
Réception d'objets: 100% (384/384), 1.88 Mio | 3.68 Mio/s, fait.
Résolution des deltas: 100% (226/226), fait.
gentoo - /home/gentoo % cd spec_tools
Compiling:
Toggle compiler in CMakeLists.txt:
- set(COMPILER gcc) -> gcc
- set(COMPILER clang) -> Clang
- set(COMPILER intel) -> Intel compiler
gentoo - spec_tools/ % cmake .
-- The C compiler identification is GNU 10.1.0
-- The CXX compiler identification is GNU 10.1.0
-- Check for working C compiler: /usr/bin/cc
-- Check for working C compiler: /usr/bin/cc - works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- Check for working CXX compiler: /usr/bin/c++
-- Check for working CXX compiler: /usr/bin/c++ - works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
CC: gcc
CXX: g++
-- Found Boost: /usr/include (found suitable version "1.73.0", minimum required is "1.40")
found components: program_options timer filesystem unit_test_framework chrono
-- Found GTK2_GTK: /usr/lib64/libgtk-x11-2.0.so
-- Found PkgConfig: /usr/bin/pkg-config (found version "1.7.3")
-- Configuring done
-- Generating done
gentoo - spec_tools/ % make -j$(nproc)
Scanning dependencies of target msg
Scanning dependencies of target threshold
Scanning dependencies of target shift
Scanning dependencies of target findncopy
Scanning dependencies of target waverage
Scanning dependencies of target trim
Scanning dependencies of target genrandspec
Scanning dependencies of target marker
[ 2%] Building CXX object CMakeFiles/threshold.dir/src/threshold.cpp.o
[ 4%] Building CXX object CMakeFiles/shift.dir/src/shift.cpp.o
[ 9%] Building CXX object CMakeFiles/trim.dir/src/trim.cpp.o
[ 9%] Building CXX object CMakeFiles/findncopy.dir/src/findncopy.cpp.o
[ 11%] Building CXX object CMakeFiles/genrandspec.dir/src/genrandspec.cpp.o
[ 13%] Building CXX object CMakeFiles/marker.dir/src/marker.cpp.o
[ 15%] Building CXX object CMakeFiles/msg.dir/include/msg.cpp.o
[ 18%] Building CXX object CMakeFiles/waverage.dir/src/waverage.cpp.o
[ 20%] Linking CXX static library libmsg.a
[ 20%] Built target msg
[ 22%] Building CXX object CMakeFiles/marker.dir/include/msg.cpp.o
[ 25%] Building CXX object CMakeFiles/findncopy.dir/include/msg.cpp.o
[ 27%] Building CXX object CMakeFiles/threshold.dir/include/msg.cpp.o
[ 29%] Building CXX object CMakeFiles/findncopy.dir/include/log.cpp.o
[ 31%] Linking CXX executable waverage
[ 34%] Building CXX object CMakeFiles/threshold.dir/include/log.cpp.o
[ 34%] Built target waverage
Scanning dependencies of target log
[ 36%] Building CXX object CMakeFiles/log.dir/include/log.cpp.o
[ 38%] Linking CXX executable findncopy
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ISSUES:
- marker.cpp with Intel compiler: std::tuple
/usr/lib/gcc/x86_64-pc-linux-gnu/9.3.0/include/g++-v9/tuple(553): error: pack "_UElements" does not have the same number of elements as "_Elements"
__and_<is_nothrow_assignable<_Elements&, _UElements>...>::value;
^
detected during:
instantiation of "bool std::tuple<_Elements...>::__nothrow_assignable<_UElements...>() [with _Elements=<float, std::string, bool>, _UElements=<>]" at line 225 of "/usr/lib/gcc/x86_64-pc-linux-gnu/9.3.0/include/g++-v9/bits/stl_heap.h"
instantiation of "void std::__adjust_heap(_RandomAccessIterator, _Distance, _Distance, _Tp, _Compare) [with _RandomAccessIterator=__gnu_cxx::__normal_iterator<std::tuple<float, std::string, bool> *, std::vector<std::tuple<float, std::string, bool>, std::allocator<std::tuple<float, std::string, bool>>>>, _Distance=std::ptrdiff_t={long}, _Tp=std::tuple<float, std::string, bool>, _Compare=__gnu_cxx::__ops::_Iter_less_iter]" at line 343 of
"/usr/lib/gcc/x86_64-pc-linux-gnu/9.3.0/include/g++-v9/bits/stl_heap.h"
instantiation of "void std::__make_heap(_RandomAccessIterator, _RandomAccessIterator, _Compare &) [with _RandomAccessIterator=__gnu_cxx::__normal_iterator<std::tuple<float, std::string, bool> *, std::vector<std::tuple<float, std::string, bool>, std::allocator<std::tuple<float, std::string, bool>>>>, _Compare=__gnu_cxx::__ops::_Iter_less_iter]" at line 1671 of "/usr/lib/gcc/x86_64-pc-linux-gnu/9.3.0/include/g++-v9/bits/stl_algo.h"
instantiation of "void std::__heap_select(_RandomAccessIterator, _RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator=__gnu_cxx::__normal_iterator<std::tuple<float, std::string, bool> *, std::vector<std::tuple<float, std::string, bool>, std::allocator<std::tuple<float, std::string, bool>>>>, _Compare=__gnu_cxx::__ops::_Iter_less_iter]" at line 1932 of "/usr/lib/gcc/x86_64-pc-linux-gnu/9.3.0/include/g++-v9/bits/stl_algo.h"
instantiation of "void std::__partial_sort(_RandomAccessIterator, _RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator=__gnu_cxx::__normal_iterator<std::tuple<float, std::string, bool> *, std::vector<std::tuple<float, std::string, bool>, std::allocator<std::tuple<float, std::string, bool>>>>, _Compare=__gnu_cxx::__ops::_Iter_less_iter]" at line 1947 of "/usr/lib/gcc/x86_64-pc-linux-gnu/9.3.0/include/g++-v9/bits/stl_algo.h"
instantiation of "void std::__introsort_loop(_RandomAccessIterator, _RandomAccessIterator, _Size, _Compare) [with _RandomAccessIterator=__gnu_cxx::__normal_iterator<std::tuple<float, std::string, bool> *, std::vector<std::tuple<float, std::string, bool>, std::allocator<std::tuple<float, std::string, bool>>>>, _Size=long, _Compare=__gnu_cxx::__ops::_Iter_less_iter]" at line 1969 of "/usr/lib/gcc/x86_64-pc-linux-gnu/9.3.0/include/g++-v9/bits/stl_algo.h"
instantiation of "void std::__sort(_RandomAccessIterator, _RandomAccessIterator, _Compare) [with _RandomAccessIterator=__gnu_cxx::__normal_iterator<std::tuple<float, std::string, bool> *, std::vector<std::tuple<float, std::string, bool>, std::allocator<std::tuple<float, std::string, bool>>>>, _Compare=__gnu_cxx::__ops::_Iter_less_iter]" at line 4867 of "/usr/lib/gcc/x86_64-pc-linux-gnu/9.3.0/include/g++-v9/bits/stl_algo.h"
instantiation of "void std::sort(_RAIter, _RAIter) [with _RAIter=__gnu_cxx::__normal_iterator<std::tuple<float, std::string, bool> *, std::vector<std::tuple<float, std::string, bool>, std::allocator<std::tuple<float, std::string, bool>>>>]" at line 227 of "Prog/cpp/spec_tools/src/marker.cpp"
/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/tuple(566): error: pack "_UElements" does not have the same number of elements as "_Elements"
__and_<is_nothrow_constructible<_Elements, _UElements>...>::value;
^
detected during:
instantiation of "bool std::tuple<_Elements...>::__nothrow_constructible<_UElements...>() [with _Elements=<void (*)(const std::vector<std::string, std::allocator<std::string>> &, double), std::vector<std::string, std::allocator<std::string>>, double>, _UElements=<>]" at line 287 of "/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/thread"
instantiation of "std::thread::_Invoker<std::thread::__decayed_tuple<_Callable, _Args...>> std::thread::__make_invoker(_Callable &&, _Args &&...) [with _Callable=void (&)(const std::vector<std::string, std::allocator<std::string>> &, double), _Args=<std::vector<std::string, std::allocator<std::string>> &, const double &>]" at line 1729 of "/usr/lib/gcc/x86_64-pc-linux-gnu/10.1.0/include/g++-v10/future"
instantiation of "std::future<std::__async_result_of<_Fn, _Args...>> std::async(std::launch, _Fn &&, _Args &&...) [with _Fn=void (&)(const std::vector<std::string, std::allocator<std::string>> &, double), _Args=<std::vector<std::string, std::allocator<std::string>> &, const double &>]" at line 219 of "Prog/cpp/spec_tools/src/threshold.cpp"
... blablabla