Move to output directory after reading input files in C executables

Disclaimer: I have not tested this, but only because I have no idea how (cc @james-clark)

This looks ok, but won't it break the BW pipeline? @james-clark ?

This fails: something's up with the outputDir. I can see the modifications required in the pipeline easily enough but here's what happens on execution - looks to me like the outputDir parsing is somehow mangled:

$ /home/james.clark/opt/lscsoft/bayeswave-fix-88/bin/BayesWave --L1-flow 20.0 --psdlength 4.0 --V1-timeslide 0.0 --bayesLine  --cleanOnly  --V1-cache datafind/V1.cache  --inj S190413ac_injection.xml --srate 2048.0 --event 0 --seglen 4.0 --L1-channel L1:DCS-CALIB_STRAIN_CLEAN_C01 --checkpoint  --trigtime 1239196167.305711985 --window 1.0 --psdstart 1239196165.305711985 --H1-cache datafind/H1.cache --Dmax 100 --L1-timeslide 0.0 --H1-channel H1:DCS-CALIB_STRAIN_CLEAN_C01 --V1-channel V1:Hrec_hoft_16384Hz --Niter 10000 --inj-fref 20.0 --updateGeocenterPSD  --V1-flow 20.0 --waveletPrior  --L1-cache datafind/L1.cache --segment-start 1239196165.305711985 --dataseed 1234 --H1-flow 20.0 --ifo H1 --ifo L1 --ifo V1 
 ========= BayesWave Version: ========

  Git remote origin: 
  Git version: 
  Git commit: 
  Git commit author: 
  Git commit date: 
  Command line:  --L1-flow 20.0 --psdlength 4.0 --V1-timeslide 0.0 --bayesLine  --cleanOnly  --V1-cache datafind/V1.cache --inj S190413ac_injection.xml --srate 2048.0 --event 0 --seglen 4.0 --L1-channel L1:DCS-CALIB_STRAIN_CLEAN_C01 --checkpoint  --trigtime 1239196167.305711985 --window 1.0 --psdstart 1239196165.305711985 --H1-cache datafind/H1.cache --Dmax 100 --L1-timeslide 0.0 --H1-channel H1:DCS-CALIB_STRAIN_CLEAN_C01 --V1-channel V1:Hrec_hoft_16384Hz --Niter 10000 --inj-fref 20.0 --updateGeocenterPSD  --V1-flow 20.0 --waveletPrior  --L1-cache datafind/L1.cache --segment-start 1239196165.305711985 --dataseed 1234 --H1-flow 20.0 --ifo H1 --ifo L1 --ifo V1


 ======= LALInferenceReadData() ======
Set trigtime to 1239196167.3057119846
Estimating PSD for H1 using 1 segments of 8192 samples (4.000000s)
Slid PSD estimation of H1 by -0.000000 s from 1239196165.3057119846 to 1239196165.3057119846
Slid H1 by -0.000000 s from 1239196165.3057119846 to 1239196165.3057119846
Estimating PSD for L1 using 1 segments of 8192 samples (4.000000s)
Slid PSD estimation of L1 by -0.000000 s from 1239196165.3057119846 to 1239196165.3057119846
Slid L1 by -0.000000 s from 1239196165.3057119846 to 1239196165.3057119846
Estimating PSD for V1 using 1 segments of 8192 samples (4.000000s)
Slid PSD estimation of V1 by -0.000000 s from 1239196165.3057119846 to 1239196165.3057119846
Slid V1 by -0.000000 s from 1239196165.3057119846 to 1239196165.3057119846

 ============= Channels ==============
Detector H1: channel DCS-CALIB_STRAIN_CLEAN_C01
Detector L1: channel DCS-CALIB_STRAIN_CLEAN_C01
Detector V1: channel Hrec_hoft_16384Hz

************************ WARNING ************************
Too few iterations for spline integration (10000)
Reverting to trapezoid integration
Request --Niter > 1000000 for spline integration
*********************************************************
 ==== LALInferenceInjectInspiralSignal(): started. ====
Injecting event 0

Level 0: (null)
	Status code 0: Nominal
	function (null), file (null), line 0
Ninj 200
Injecting approximant 79: IMRPhenomPv2pseudoFourPN

Level 0: (null)
	Status code 0: Nominal
	function (null), file (null), line 0


---		 ---
Injection will run using Approximant 79 (IMRPhenomPv2), phase order 8, amp order 0, spin order -1, tidal order -1, in the frequency domain.
---		 ---

injected SNR 59.0 in IFO H1
injected SNR 43.5 in IFO L1
injected SNR 5.7 in IFO V1
injected Network SNR 73.5 
 ==== LALInferenceInjectInspiralSignal(): finished. ====


Outputting all data to: � 

[1]    834349 segmentation fault  /home/james.clark/opt/lscsoft/bayeswave-fix-88/bin/BayesWave --L1-flow 20.0

This should be enough to reproduce the error & test on CIT, assuming the executable from the fix-88 branch is in your path (will get this kind of thing into the CI one day...):

$ OUTDIR="fix-88-injection-test"
$ mkdir -p ${OUTDIR}
$ CACHEDIR="/home/james.clark/Projects/fix-88/S190413ac_catalog_run/datafind"
$ INJFILE="/home/james.clark/Projects/fix-88/S190413ac_catalog_run/S190413ac_injection.xml"
$ BayesWave --L1-flow 20.0 --psdlength 4.0 --V1-timeslide 0.0 --bayesLine  --cleanOnly  --V1-cache ${CACHEDIR}/V1.cache  --inj ${INJFILE} --srate 2048.0 --event 0 --seglen 4.0 --L1-channel L1:DCS-CALIB_STRAIN_CLEAN_C01 --checkpoint  --trigtime 1239196167.305711985 --window 1.0 --psdstart 1239196165.305711985 --H1-cache ${CACHEDIR}/H1.cache --Dmax 100 --L1-timeslide 0.0 --H1-channel H1:DCS-CALIB_STRAIN_CLEAN_C01 --V1-channel V1:Hrec_hoft_16384Hz --Niter 10000 --inj-fref 20.0 --updateGeocenterPSD  --V1-flow 20.0 --waveletPrior  --L1-cache ${CACHEDIR}/L1.cache --segment-start 1239196165.305711985 --dataseed 1234 --H1-flow 20.0 --ifo H1 --ifo L1 --ifo V1

Move to output directory after reading input files in C executables

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