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Usage: %s [options] raw_file out_file Options: -sl1 n [1] Start slice to reconstruct -sl2 n [all] End slice to reconstruct -reps n [all] Number of repetitions to reconstruct -b0map n [header] 1=shim correction 0=no -foffset n [0] Freq_offset(Hz) [overwritten if b0map=1] -navc n [0] 1=navigator correction 0=no -imgtyp n [1] Bit map: 1=mag, 2=phase, 4=real(I), 8=imag(Q) -npix n [header] Reconstruction size [power of 2] -zoomf n [1] Magnification factor -maxwell n [1] 1=maxwell field correction 0=no -print n [2] 2=all 1=header info 0=none -noft [do FT] Don't do FT (show K-space data) -nocomb [RMS] Don't combine multi coil data -coil Indicate which coils to reconstruct Syntax: -coil first:last OR -coil coil1,coil2,coil3 Example: -coil 1:8 OR -coil 1,2,5 -float Output data in float format -scale n [spiral: 1. epi: 0.1] Output data scale factor for imgtype:mag,real,imag -noimgfiles n [0] 0=output image files, output BRIK 1=delete images files, output BRIK -nopc [dopc] Don't do EPI phase correction -noshift [doshift] Don't do in-plane shift -nofilter [dofilter] Don't do fermi filtering -nav0 [no nav] Crude K=0 point navigator for multishot 2D spiral -saveraw [no raw] Save raw filesfoff = %5.1f Hz wx, wy = %4.1f %4.1f rad/s/pix fov=%f N=%i Tmax=%f dt=%f gamp=%f gslew=%f nl=%i spmaxband=%f Failed to converge in %i iterations on count %i Start: %c%0.1f %c%0.1f %c%0.1f End: %c%0.1f %c%0.1f %c%0.1f 3dNotes -a 'Rx info: %s' %s+orig3D:0:0:%i:%i:%i:%s.c%02d.e%02d.\*to3d -prefix %s -epan -time:tz %d %d 1000 seq+z -xSLAB %1.3fR-%1.3fL -ySLAB %1.3fA-%1.3fP -zFOV %1.3fI-S %sspep %2.1f, reps %i, nEcho %i, TR %i, TE %i, TE2 %i, nIntlv %i, nCoil %i, nPix %i, FOV %3.1f, nSlice %i, slThick %2.1f, slGap %2.1f, slDelay %i, spdir1 %i, spdir2 %i3dNotes -a 'Sequence parameters for %s: %s' %s+origtag %i, q %i, TI2 %i, TI1 %i, tagThick %i, tagOffset %3.1f, dif %i3dNotes -a 'ASL parameters for %s: %s' %s+orig3dNotes -a '%s reconstructed with: %s' %s+origmpsR1 %i, mpsR2 %i, mpsTG %i, mpsFREQ %i apsR1 %i, apsR2 %i, apsTG %i, apsFREQ %i3dNotes -a 'Prescan values for %s: %s' %s+origdda %i, fsat %i, bgs_on %i, bgs_spatial %i, bgsn %i, bgsthick %i, nsfairtagthick %i, fair_slabsel %i, psat_on %i, postsat_on %i3dNotes -a 'Additional scan parameters for %s: %s' %s+origoppseq %i, pwpcasl %i, sechNSte %ifind -type f -name '%s.*' | xargs /bin/rm -f Required syntax is of the form 1,2,3,4last coil number must be >= first coil numberlast coil number must be <= %d mpsR1=%d mpsR2=%d mpsTG=%d mpsFREQ=%d apsR1=%d apsR2=%d apsTG=%d apsFREQ=%d nsamp = %d nl = %d ncoil = %d nslices = %d nechoes = %d reps = %d Sorry, I don't recognize this data file ******************************************oscan=%i ndx=%i ndy=%i skip=%i WARNING! SENSE used: gr cannot recon these data!****************************************** 17.4This is source rev gr(%s) %s -sl1-sl2-reps-b0map-foffset-navc-imgtyp-npix-zoomf-maxwell-print-noimgfiles-float-noft-nocomb-scale-headfudge-nopc-noshift-nofilter-coil-nav0-saverawepi->headfudge=%i r=%f i=%f mag=%f Short of data! >Generating navcor ref %f %f .%03d.%04dmax = %5.1f %s_pmax = %3d %s_q%s_i.%02d.%04d.c%02d.e%02dWriting image %s .. Can't write file! Can't open %s! npix=%i imgtyp=%i combine=%i Slice %d echo %d Calculating Bo map .. %s.B0wrong trajectory typeslew limited readout too longgmax limited readout too longgensp failed!genspiral failed!done with initkxkyfiledata.txtreorderrawdata.txtoffset for slice %i = %i Output BRIK written to disk%sbrik_c%02d_e%02d to3d_str = %s gr %s, %s, (%s)3D:0:0:%i:%i:%i:%s.e%02d.\*%sbrik_e%02d3D:0:0:%i:%i:%i:%s.c%02d\*%sbrik_c%02d3D:0:0:%i:%i:%i:%s.\*%sbrik cleanup_str = %s %d:%d Coils: %d %d,%dcoil numbers must be > 0coil numbers must be <= %d first coil number must be > 0Can't open rawfile %s! header too short! loopmode=%i nprep=%i spdir1 = %d spdir2 = %d tmin = %d (us) etl=%i nslc=%i kzpat=%i rhnframes=%i, rhfrsize=%i RDB_HEADER_SIZE_BYTES = %i xoff = %f yoff = %f sense = %i sptraj = %i oscan=%i ndx=%i ndy=%i Done!!$tI>zD`DE`D?<I@IB?FFH#J? Ap@tHZr?Ix?2t?,?N?03@$ @;^p?UL+ߐZ?'TPÂ?JNYՒ+Hub?-5?e3E?-DT!@INIT: headoffset=%i headfudge=%i ndx=%i ndy=%i nl=%i npix=%i frsize=%i xpad1=%i xpad2=%i ypad1=%i ypad2=%i Time shift in microseconds, and center frequency in Hz %6.2f:%6.2f %6.2f Time shift in microseconds reps=%i nslice=%i phases=%i ndx=%i ndy=%i xoscan=%i oscan=%i npix=%i .Error in readMRImageHeader(). .Error in readSeriesHeader().Retrieving Rx info from pfile %s! norm_R= %5.4f, norm_A=%5.4f, norm_S=%5.4f ---------------------------------Start: %c%0.1f %c%0.1f %c%0.1f rb R/L A/P S/IEnd: %c%0.1f %c%0.1f %c%0.1f Can't open pfile %s! Error in readDataAcqTable(). . Error in readExamHeader().i D 4H Z [,oĆoorZrˆ҈"2BRbr‰҉"2BRbrZ? F@@? >=AB@??GCC: (GNU) 3.4.6 20060404 (Red Hat 3.4.6-3)GCC: (GNU) 3.4.6 20060404 (Red Hat 3.4.6-3)GCC: (GNU) 3.4.6 20060404 (Red Hat 3.4.6-8)GCC: (GNU) 3.4.6 20060404 (Red Hat 3.4.6-8)GCC: (GNU) 3.4.6 20060404 (Red Hat 3.4.6-8)GCC: (GNU) 3.4.6 20060404 (Red Hat 3.4.6-8)GCC: (GNU) 3.4.6 20060404 (Red Hat 3.4.6-8)GCC: (GNU) 3.4.6 20060404 (Red Hat 3.4.6-8)GCC: (GNU) 3.4.6 20060404 (Red Hat 3.4.6-8)GCC: (GNU) 3.4.6 20060404 (Red Hat 3.4.6-8)GCC: (GNU) 3.4.6 20060404 (Red Hat 3.4.6-8)GCC: (GNU) 3.4.6 20060404 (Red Hat 3.4.6-8)GCC: (GNU) 3.4.6 20060404 (Red Hat 3.4.6-3).symtab.strtab.shstrtab.interp.note.ABI-tag.hash.dynsym.dynstr.gnu.version.gnu.version_r.rel.dyn.rel.plt.init.text.fini.rodata.eh_frame.ctors.dtors.jcr.dynamic.got.got.plt.data.bss.comment#(( 1HH@7 ?ZGorrRToĆPc l ,, uDDp\\@{ 44JZZZZ[[L\LX\@ I$ 6 D7 (HrĆ, D \  4 4JZZZZ[[L\\ Z*Z8ZET\I\U k wZZJZl4 @]@_@a@cDc&'p/. 8HcAt'` I`cL`kT`k Yk _\iV \d\@/.  (]Z    ,0E   Z 7      \# * /3. > J O\T ^ d( m4t x!   p\ &Zb  ]p P\\T (4B /`# 7?G O1 [ n v$z @0p\ ] \\   /  }    * X\\*: =!DD J!P !WM ]$!h(!n\y|\],!0!4!]8! ; B [ G,Z  M\$ q$[ x0F ]([ \,[ L\ 0[ 4[ 64 '} 8[ <[ +@[ 3 >]FD[ NH[ QZeL[ n`[ xt\}[ ( [ [ x\ [ 00 ] D ! 4 ] 8 ] t\< ] @ ] & \ ` ] 0 F! \+ _ 02 1D \K [a a 0f / k  c s .` | 8  c  \  c   c  c  $ c  ( c  , c  l* |. ? 0 c  4 c  3 Z 8 c  4 < c  @ c   $ ]' @ 0* p 3 @- < 1O a L\n &}   / Z "e  ,t "e  "e  "e  l\ "e  "e 0 \ "g  "g  #g  m % 0call_gmon_startcrtstuff.c__CTOR_LIST____DTOR_LIST____JCR_LIST__p.0completed.1__do_global_dtors_auxframe_dummy__CTOR_END____DTOR_END____FRAME_END____JCR_END____do_global_ctors_auxgr.crefr.0refi.1refpt.2bessi0.cfftc.ccalcden.cepi.csw.cvec.creadrx.cNngridcos@@GLIBC_2.0readSeriesHeadergridydstinit_swgfimgcombibufdatabfermimout__strtod_internal@@GLIBC_2.0gridcountboutscalereadMRImageHeaderisl2sptypeinstructionsgridwtisl3dnpixreadrxmake_rot_DYNAMICpreptiset_trajislfour1tagoffsetbessi0imgtypsptrajbgsnreadExamHeaderbgs_spatialiechdwinrawimsizegtypeinit_epi_fp_hwifrfprintf@@GLIBC_2.0xoffzshotsnechodopcwsfflush@@GLIBC_2.0sinf@@GLIBC_2.0__fini_array_endspiral2dwxoppseqpwpcaslfftc__dso_handleheadfudgesqdatdifcosbf__libc_csu_finiload_ftmyfile3prepti1coilstrwrite_imageputchar@@GLIBC_2.0slcpos2tagparsearggympsr1usencoilphimDensspmaxbandslcthkpow@@GLIBC_2.0debugapsfreqfair_slabselsensereadPFileHeaderrepssystem@@GLIBC_2.0rxnlwritebrikcombinenfermiwoutputs@@GLIBC_2.0Kyspdir1_initmapdtslcgapepi2dpostsat_onkzzigusecoilstrmalloc@@GLIBC_2.0fermiminfoffinspeprevrhnframesfread@@GLIBC_2.0isl1w0finmpstgimg3drint@@GLIBC_2.0epiftapstgnpixo2spiral3dsm_allocfroffsetstdout@@GLIBC_2.0stderr@@GLIBC_2.0coilarrayhypot@@GLIBC_2.0apply_rotload_epi_refigfimtranfseek@@GLIBC_2.0foffgenspiralkxfind_slopenzoutmpsr2grver_startdofilterdwininsfairtagthickoutfilencoildomaxwellnavcoryoffimggenspchangescaleddanav0noimgfiles__strtol_internal@@GLIBC_2.0nsampsl3digatan2@@GLIBC_2.0opte2gridxdstreadDataAcqTableinitetlKx__fini_array_startepi_imtranfputc@@GLIBC_2.0__libc_csu_initoptebgsthick__bss_startmainicoilfermirparsecoilkyrhfrsize__libc_start_main@@GLIBC_2.0__init_array_endrawnslcb0mapexp@@GLIBC_2.0get_phase_correctionquipssgetslewnavcsqrtf@@GLIBC_2.0strcat@@GLIBC_2.0gampgaindtsdata_startapsr2loopmodeprintf@@GLIBC_2.0_finimemcpy@@GLIBC_2.0sqrt@@GLIBC_2.0recotypenprepfclose@@GLIBC_2.1mpsfreqspinwarp2dsaverawrhnechosw__preinit_array_endspdirallpfileoutfloatfbuf3dload_swntotalkzpatGammapbufoutoffsetmaxwellreportslcpos1tagthickprintflagexit@@GLIBC_2.0gridsrcoptrcosf@@GLIBC_2.0noftdbufcalloc@@GLIBC_2.0nfermiwinpbufinsscanf@@GLIBC_2.0_edata_GLOBAL_OFFSET_TABLE_pbuf_endmyfile2fm_alloccalcdenepizoomfapsr1imrotnbpib0fsatifbuf3dft2dst_allocload_epibmapflagpsat_onfopen@@GLIBC_2.1__init_array_startbgs_on_IO_stdin_usedgfovkx0load_viewwygxsenseallft_allocsprintf@@GLIBC_2.0fwrite@@GLIBC_2.0__data_startsin@@GLIBC_2.0_Jv_RegisterClassesky0open_files__preinit_array_startgslewswftsechNStespdir2rawnslcdoshiftnf2dofbufiusecoilrotmattmindenssinh@@GLIBC_2.0__gmon_start__strcpy@@GLIBC_2.0