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Update all QSUB_1NODE clients
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@billkarsh
billkarsh committed Jun 26, 2017
1 parent 494e05d commit 888ebb0
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Showing 29 changed files with 40 additions and 43 deletions.
2 changes: 0 additions & 2 deletions 1_Cross_CarveBlocks/breport.sht
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Expand Up @@ -11,8 +11,6 @@

ls -l ../*/D*/xD*.e* > BlockErrs.txt

ls -l ../*/D*/xD*.o* > BlockOuts.txt

ls -l ../*/D*/make.down > BlockMakes.txt

grep FAIL ../*/D*/cross_thisblock.log > BlockFAIL.txt
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6 changes: 2 additions & 4 deletions 1_Cross_CarveBlocks/cross_carveblocks.cpp
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Expand Up @@ -167,7 +167,7 @@ static void WriteTestblockFile()
fprintf( f, "\n" );
fprintf( f, "export MRC_TRIM=12\n" );
fprintf( f, "\n" );
fprintf( f, "QSUB_1NODE.sht 7 \"x\" \"\" %d \"cross_thisblock -script=%s\"\n",
fprintf( f, "QSUB_1NODE.sht 7 \"x\" \"\" 1 %d \"cross_thisblock -script=%s\"\n",
scr.blockslots, gArgs.script );
fprintf( f, "\n" );

Expand Down Expand Up @@ -224,7 +224,7 @@ static void WriteBSubFile()
fprintf( f, "\t\tfor jb in $(ls -d * | grep -E 'D[0-9]{1,}_[0-9]{1,}')\n" );
fprintf( f, "\t\tdo\n" );
fprintf( f, "\t\t\tcd $jb\n" );
fprintf( f, "\t\t\tQSUB_1NODE.sht 7 \"x$jb-$lyr\" \"\" %d \"cross_thisblock -script=%s\"\n",
fprintf( f, "\t\t\tQSUB_1NODE.sht 7 \"x$jb-$lyr\" \"\" 1 %d \"cross_thisblock -script=%s\"\n",
scr.blockslots, gArgs.script );
fprintf( f, "\t\t\tcd ..\n" );
fprintf( f, "\t\tdone\n" );
Expand Down Expand Up @@ -319,8 +319,6 @@ static void WriteReportFiles()
fprintf( f, "\n" );
fprintf( f, "ls -l ../*/D*/xD*.e* > BlockErrs.txt\n" );
fprintf( f, "\n" );
fprintf( f, "ls -l ../*/D*/xD*.o* > BlockOuts.txt\n" );
fprintf( f, "\n" );
fprintf( f, "ls -l ../*/D*/make.down > BlockMakes.txt\n" );
fprintf( f, "\n" );
fprintf( f, "grep FAIL ../*/D*/cross_thisblock.log > BlockFAIL.txt\n" );
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2 changes: 1 addition & 1 deletion 1_Cross_ThisBlock/bsub.sht
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Expand Up @@ -35,7 +35,7 @@ do
for jb in $(ls -d * | grep -E 'D[0-9]{1,}_[0-9]{1,}')
do
cd $jb
QSUB_1NODE.sht 7 "x$jb-$lyr" "" 8 "cross_thisblock -script=../../scriptparams.txt"
QSUB_1NODE.sht 7 "x$jb-$lyr" "" 1 8 "cross_thisblock -script=../../scriptparams.txt"
cd ..
done

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2 changes: 1 addition & 1 deletion 1_Cross_ThisBlock/testblock.sht
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Expand Up @@ -12,5 +12,5 @@

export MRC_TRIM=12

QSUB_1NODE.sht 7 "x" "" 8 "cross_thisblock -script=../../scriptparams.txt"
QSUB_1NODE.sht 7 "x" "" 1 8 "cross_thisblock -script=../../scriptparams.txt"

4 changes: 2 additions & 2 deletions 1_Cross_TopScripts/cross_topscripts.cpp
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Expand Up @@ -248,7 +248,7 @@ static void WriteSubscapes( vector<int> &zlist )
for( int iz = 1; iz < nz; ++iz ) {

fprintf( f,
"QSUB_1NODE.sht 5 \"sc-%d\" \"-j y -o out.txt\" %d"
"QSUB_1NODE.sht 5 \"sc-%d\" \"subscapes.out\" 0 %d"
" \"scapeops %s -ab -za=%d -zb=%d\"\n",
zlist[iz - 1], scr.stripslots,
sopt, zlist[iz], zlist[iz - 1] );
Expand All @@ -260,7 +260,7 @@ static void WriteSubscapes( vector<int> &zlist )
fprintf( f, "# Just montage last layer\n" );

fprintf( f,
"QSUB_1NODE.sht 6 \"sc-%d\" \"-j y -o out.txt\" %d"
"QSUB_1NODE.sht 6 \"sc-%d\" \"subscapes.out\" 0 %d"
" \"scapeops %s -zb=%d\"\n",
zlist[nz - 1], scr.stripslots,
sopt, zlist[nz - 1] );
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2 changes: 1 addition & 1 deletion 1_LSQi/lsq.cpp
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Expand Up @@ -344,7 +344,7 @@ void CArgs::LaunchWorkers( const vector<Layer> &vL )
else { // qsub for desired slots

sprintf( buf,
"QSUB_1NODE.sht 8 \"lsqw\" \"\" %d"
"QSUB_1NODE.sht 8 \"lsqw\" \"\" 1 %d"
" \"lsqw -nwks=%d -temp=%s"
" -cache=%s -prior=%s"
" -mode=%s -Wr=%c,%g -Etol=%g -iters=%d"
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2 changes: 1 addition & 1 deletion 1_MRCSD1Lyr/submrcsd.sht
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Expand Up @@ -9,6 +9,6 @@ setenv MRC_TRIM 12

for i in $(seq $2 $3)
do
QSUB_1NODE.sht 30 "sd-$i" "-j y -o out.txt" 1 "MRCSD1Lyr $1 -z=$i"
QSUB_1NODE.sht 30 "sd-$i" "out.txt" 0 1 "MRCSD1Lyr $1 -z=$i"
done

2 changes: 1 addition & 1 deletion 1_MakeIDB/fsub.sht
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Expand Up @@ -24,7 +24,7 @@ do
if [ -d "$lyr" ]
then
cd $lyr
QSUB_1NODE.sht 1 "makefm-$lyr" "-o /dev/null" $nslot "make -f make.fm -j $nproc EXTRA='""'"
QSUB_1NODE.sht 1 "makefm-$lyr" "" 1 $nslot "make -f make.fm -j $nproc EXTRA='""'"
cd ..
fi
done
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2 changes: 1 addition & 1 deletion 1_MakeIDB/makeidb.cpp
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Expand Up @@ -279,7 +279,7 @@ static void WriteFSubFile()
fprintf( f, "\tif [ -d \"$lyr\" ]\n" );
fprintf( f, "\tthen\n" );
fprintf( f, "\t\tcd $lyr\n" );
fprintf( f, "\t\tQSUB_1NODE.sht 1 \"makefm-$lyr\" \"-o /dev/null\" $nslot \"make -f make.fm -j $nproc EXTRA='\"\"'\"\n" );
fprintf( f, "\t\tQSUB_1NODE.sht 1 \"makefm-$lyr\" \"\" 1 $nslot \"make -f make.fm -j $nproc EXTRA='\"\"'\"\n" );
fprintf( f, "\t\tcd ..\n" );
fprintf( f, "\tfi\n" );
fprintf( f, "done\n" );
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6 changes: 3 additions & 3 deletions 1_MakeMontages/Retired/retired.cpp
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Expand Up @@ -20,7 +20,7 @@ static void WriteSFinishFile()
fprintf( f, "# > ./sfinish.sht\n" );
fprintf( f, "\n" );
fprintf( f, "\n" );
fprintf( f, "QSUB_1NODE.sht 9 \"finish\" \"\" 8 \"./finish.sht\"\n" );
fprintf( f, "QSUB_1NODE.sht 9 \"finish\" \"\" 1 8 \"./finish.sht\"\n" );
fprintf( f, "\n" );

fclose( f );
Expand Down Expand Up @@ -199,7 +199,7 @@ static void WriteSubmonFile()
fprintf( f, "\techo $lyr\n" );
fprintf( f, "\tif [ -d \"$lyr\" ]\n" );
fprintf( f, "\tthen\n" );
fprintf( f, "\t\tQSUB_1NODE.sht 4 \"mon-$lyr\" \"\" 8 \"./montage1.sht $lyr\"\n" );
fprintf( f, "\t\tQSUB_1NODE.sht 4 \"mon-$lyr\" \"\" 1 8 \"./montage1.sht $lyr\"\n" );
fprintf( f, "\tfi\n" );
fprintf( f, "done\n" );
fprintf( f, "\n" );
Expand Down Expand Up @@ -266,7 +266,7 @@ static void WriteSubmosFile()
fprintf( f, "\techo $lyr\n" );
fprintf( f, "\tif [ -d \"$lyr\" ]\n" );
fprintf( f, "\tthen\n" );
fprintf( f, "\t\tQSUB_1NODE.sht 10 \"mos-$lyr\" \"\" 8 \"mos ../stack/simple 0,0,-1,-1 $lyr,$lyr -warp%s > mos_$lyr.txt\"\n",
fprintf( f, "\t\tQSUB_1NODE.sht 10 \"mos-$lyr\" \"\" 1 8 \"mos ../stack/simple 0,0,-1,-1 $lyr,$lyr -warp%s > mos_$lyr.txt\"\n",
(gArgs.NoFolds ? " -nf" : "") );
fprintf( f, "\tfi\n" );
fprintf( f, "done\n" );
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2 changes: 1 addition & 1 deletion 1_MakeMontages/Retired/sfinish.sht
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Expand Up @@ -6,5 +6,5 @@
# > ./sfinish.sht


QSUB_1NODE.sht 9 "finish" "" 8 "./finish.sht"
QSUB_1NODE.sht 9 "finish" "" 1 8 "./finish.sht"

2 changes: 1 addition & 1 deletion 1_MakeMontages/Retired/submon.sht
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Expand Up @@ -19,7 +19,7 @@ do
echo $lyr
if [ -d "$lyr" ]
then
QSUB_1NODE.sht 4 "mon-$lyr" "" 8 "./montage1.sht $lyr"
QSUB_1NODE.sht 4 "mon-$lyr" "" 1 8 "./montage1.sht $lyr"
fi
done

2 changes: 1 addition & 1 deletion 1_MakeMontages/dsub.sht
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Expand Up @@ -32,7 +32,7 @@ do

if [ -e make.down ]
then
QSUB_1NODE.sht 3 "q$jb-$lyr" "-o /dev/null" $nslot "make -f make.down -j $nproc EXTRA='""'"
QSUB_1NODE.sht 3 "q$jb-$lyr" "" 1 $nslot "make -f make.down -j $nproc EXTRA='""'"
fi

cd ..
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6 changes: 3 additions & 3 deletions 1_MakeMontages/makemontages.cpp
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Expand Up @@ -465,7 +465,7 @@ static void WriteSSubNFile()
fprintf( f, "\t\tfor jb in $(ls -d * | grep -E 'S[0-9]{1,}_[0-9]{1,}')\n" );
fprintf( f, "\t\tdo\n" );
fprintf( f, "\t\t\tcd $jb\n" );
fprintf( f, "\t\t\tQSUB_1NODE.sht 2 \"q$jb-$lyr\" \"-o /dev/null\" $nslot \"make -f make.same -j $nproc EXTRA='\"\"'\"\n" );
fprintf( f, "\t\t\tQSUB_1NODE.sht 2 \"q$jb-$lyr\" \"\" 1 $nslot \"make -f make.same -j $nproc EXTRA='\"\"'\"\n" );
fprintf( f, "\t\t\tcd ..\n" );
fprintf( f, "\t\tdone\n" );
fprintf( f, "\n" );
Expand Down Expand Up @@ -526,7 +526,7 @@ static void WriteDSubNFile()
fprintf( f, "\n" );
fprintf( f, "\t\t\tif [ -e make.down ]\n" );
fprintf( f, "\t\t\tthen\n" );
fprintf( f, "\t\t\t\tQSUB_1NODE.sht 3 \"q$jb-$lyr\" \"-o /dev/null\" $nslot \"make -f make.down -j $nproc EXTRA='\"\"'\"\n" );
fprintf( f, "\t\t\t\tQSUB_1NODE.sht 3 \"q$jb-$lyr\" \"\" 1 $nslot \"make -f make.down -j $nproc EXTRA='\"\"'\"\n" );
fprintf( f, "\t\t\tfi\n" );
fprintf( f, "\n" );
fprintf( f, "\t\t\tcd ..\n" );
Expand Down Expand Up @@ -683,7 +683,7 @@ static void WriteMSubFile()
fprintf( f, "\tthen\n" );
fprintf( f, "\t\tcd $lyr/montage\n" );
fprintf( f, "\n" );
fprintf( f, "\t\tQSUB_1NODE.sht 4 \"mon-$lyr\" \"\" 1 \"./runlsq.sht\"\n" );
fprintf( f, "\t\tQSUB_1NODE.sht 4 \"mon-$lyr\" \"\" 1 1 \"./runlsq.sht\"\n" );
fprintf( f, "\n" );
fprintf( f, "\t\tcd ../..\n" );
fprintf( f, "\tfi\n" );
Expand Down
2 changes: 1 addition & 1 deletion 1_MakeMontages/msub.sht
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Expand Up @@ -20,7 +20,7 @@ do
then
cd $lyr/montage

QSUB_1NODE.sht 4 "mon-$lyr" "" 1 "./runlsq.sht"
QSUB_1NODE.sht 4 "mon-$lyr" "" 1 1 "./runlsq.sht"

cd ../..
fi
Expand Down
2 changes: 1 addition & 1 deletion 1_MakeMontages/ssub.sht
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Expand Up @@ -29,7 +29,7 @@ do
for jb in $(ls -d * | grep -E 'S[0-9]{1,}_[0-9]{1,}')
do
cd $jb
QSUB_1NODE.sht 2 "q$jb-$lyr" "-o /dev/null" $nslot "make -f make.same -j $nproc EXTRA='""'"
QSUB_1NODE.sht 2 "q$jb-$lyr" "" 1 $nslot "make -f make.same -j $nproc EXTRA='""'"
cd ..
done

Expand Down
2 changes: 1 addition & 1 deletion 1_Mosaic_current/submos.sht
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Original file line number Diff line number Diff line change
Expand Up @@ -44,7 +44,7 @@ do
echo $lyr
if [ -d "$lyr" ]
then
QSUB_1NODE.sht 10 "mos-$lyr" "" 8 "mos ../stack/simple 0,0,-1,-1 $lyr,$lyr -warp -nf > mos_$lyr.txt"
QSUB_1NODE.sht 10 "mos-$lyr" "" 1 8 "mos ../stack/simple 0,0,-1,-1 $lyr,$lyr -warp -nf > mos_$lyr.txt"
fi
done

2 changes: 1 addition & 1 deletion 2_GrayRanger/GrayRanger.cpp
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Expand Up @@ -193,7 +193,7 @@ static void WriteScript( vector<int> &zlist )
for( int iz = 0; iz < nz; ++iz ) {

fprintf( f,
"QSUB_1NODE.sht 31 \"gr-%d\" \"-j y -o out.txt\" 4"
"QSUB_1NODE.sht 31 \"gr-%d\" \"out.txt\" 0 4"
" \"GraRan1Lyr '%s' -z=%d %s\"\n",
zlist[iz], gArgs.infile, zlist[iz], sopt );
}
Expand Down
2 changes: 1 addition & 1 deletion 2_HEQLayers/HEQLayers.cpp
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Expand Up @@ -192,7 +192,7 @@ static void WriteScript( vector<int> &zlist )
for( int iz = 0; iz < nz; ++iz ) {

fprintf( f,
"QSUB_1NODE.sht 32 \"heq-%d\" \"-j y -o out.txt\" 4"
"QSUB_1NODE.sht 32 \"heq-%d\" \"out.txt\" 0 4"
" \"HEQ1Lyr '%s' %s -z=%d %s\"\n",
zlist[iz], gArgs.infile, gArgs.tag, zlist[iz], sopt );
}
Expand Down
2 changes: 1 addition & 1 deletion 2_HistAll/HistAll.cpp
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Original file line number Diff line number Diff line change
Expand Up @@ -225,7 +225,7 @@ static void WriteScript( const vector<Picture> &vp )
int chn = gArgs.chn[ic];

fprintf( f,
"QSUB_1NODE.sht 33 \"hst-%d-%d\" \"-j y -o out.txt\" 1"
"QSUB_1NODE.sht 33 \"hst-%d-%d\" \"out.txt\" 0 1"
" \"Hist1 '%s_%d.tif' 'HST_%d_%d_%d.bin'\"\n",
ip*nc+ic, np*nc,
P.fname.c_str(), chn, P.z, P.id, chn );
Expand Down
2 changes: 1 addition & 1 deletion 2_RGBMerge/RGBMerge.cpp
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Original file line number Diff line number Diff line change
Expand Up @@ -250,7 +250,7 @@ static void WriteScript( vector<int> &zlist )
for( int iz = 0; iz < nz; ++iz ) {

fprintf( f,
"QSUB_1NODE.sht 34 \"rgbm-%d\" \"-j y -o out.txt\" 4"
"QSUB_1NODE.sht 34 \"rgbm-%d\" \"out.txt\" 0 4"
" \"RGBM1Lyr '%s' %s -z=%d %s\"\n",
zlist[iz], gArgs.infile, gArgs.tag, zlist[iz], sopt );
}
Expand Down
8 changes: 4 additions & 4 deletions Retired_Proj/1_MakeALN/makealn.cpp
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Original file line number Diff line number Diff line change
Expand Up @@ -323,7 +323,7 @@ static void WriteSubmosFile()
fprintf( f, "\techo $lyr\n" );
fprintf( f, "\tif [ -d \"$lyr\" ]\n" );
fprintf( f, "\tthen\n" );
fprintf( f, "\t\tQSUB_1NODE.sht 10 \"mos-$lyr\" \"\" 8 \"mos ../stack/simple 0,0,-1,-1 $lyr,$lyr -warp%s > mos_$lyr.txt\"\n",
fprintf( f, "\t\tQSUB_1NODE.sht 10 \"mos-$lyr\" \"\" 1 8 \"mos ../stack/simple 0,0,-1,-1 $lyr,$lyr -warp%s > mos_$lyr.txt\"\n",
(gArgs.NoFolds ? " -nf" : "") );
fprintf( f, "\tfi\n" );
fprintf( f, "done\n" );
Expand Down Expand Up @@ -374,11 +374,11 @@ static void WriteSubNFile( int njobs )
fprintf( f, "\tif [ -d \"$lyr\" ]\n" );
fprintf( f, "\tthen\n" );
fprintf( f, "\t\tcd $lyr/S0_0\n" );
fprintf( f, "\t\tQSUB_1NODE.sht 2 \"qS0_0-$lyr\" \"-o /dev/null\" $nslot \"make -f make.same -j $nproc EXTRA='\"\"'\"\n" );
fprintf( f, "\t\tQSUB_1NODE.sht 2 \"qS0_0-$lyr\" \"\" 1 $nslot \"make -f make.same -j $nproc EXTRA='\"\"'\"\n" );
fprintf( f, "\t\tif (($lyr > $1))\n" );
fprintf( f, "\t\tthen\n" );
fprintf( f, "\t\t\tcd ../D0_0\n" );
fprintf( f, "\t\t\tQSUB_1NODE.sht 3 \"qD0_0-$lyr\" \"-o /dev/null\" $nslot \"make -f make.down -j $nproc EXTRA='\"\"'\"\n" );
fprintf( f, "\t\t\tQSUB_1NODE.sht 3 \"qD0_0-$lyr\" \"\" 1 $nslot \"make -f make.down -j $nproc EXTRA='\"\"'\"\n" );
fprintf( f, "\t\tfi\n" );
fprintf( f, "\t\tcd ../..\n" );
fprintf( f, "\tfi\n" );
Expand Down Expand Up @@ -521,7 +521,7 @@ static void WriteSFinishFile()
fprintf( f, "# > ./sfinish.sht\n" );
fprintf( f, "\n" );
fprintf( f, "\n" );
fprintf( f, "QSUB_1NODE.sht 9 \"finish\" \"\" 8 \"./finish.sht\"\n" );
fprintf( f, "QSUB_1NODE.sht 9 \"finish\" \"\" 1 8 \"./finish.sht\"\n" );
fprintf( f, "\n" );

fclose( f );
Expand Down
2 changes: 1 addition & 1 deletion Retired_Proj/1_MakeALN/sfinish.sht
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Original file line number Diff line number Diff line change
Expand Up @@ -6,5 +6,5 @@
# > ./sfinish.sht


QSUB_1NODE.sht 9 "finish" "" 8 "./finish.sht"
QSUB_1NODE.sht 9 "finish" "" 1 8 "./finish.sht"

4 changes: 2 additions & 2 deletions Retired_Proj/1_MakeALN/sub.sht
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Original file line number Diff line number Diff line change
Expand Up @@ -25,11 +25,11 @@ do
if [ -d "$lyr" ]
then
cd $lyr/S0_0
QSUB_1NODE.sht 2 "qS0_0-$lyr" "-o /dev/null" $nslot "make -f make.same -j $nproc EXTRA='""'"
QSUB_1NODE.sht 2 "qS0_0-$lyr" "" 1 $nslot "make -f make.same -j $nproc EXTRA='""'"
if (($lyr > $1))
then
cd ../D0_0
QSUB_1NODE.sht 3 "qD0_0-$lyr" "-o /dev/null" $nslot "make -f make.down -j $nproc EXTRA='""'"
QSUB_1NODE.sht 3 "qD0_0-$lyr" "" 1 $nslot "make -f make.down -j $nproc EXTRA='""'"
fi
cd ../..
fi
Expand Down
3 changes: 2 additions & 1 deletion macros/newses.sht
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Original file line number Diff line number Diff line change
@@ -1,5 +1,6 @@
#!/bin/sh

qlogin -l interactive=true -pe batch $1

qlogin -l new=true,interactive=true -pe batch $1
#bsub -n $1 -Is /bin/bash

2 changes: 1 addition & 1 deletion macros/subdel.sht
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Original file line number Diff line number Diff line change
Expand Up @@ -3,5 +3,5 @@
# > ./subdel.sht dirname


QSUB_1NODE.sht 0 "del-$1" "" 1 "rm -rf "$1""
QSUB_1NODE.sht 0 "del-$1" "" 0 1 "rm -rf "$1""

4 changes: 2 additions & 2 deletions macros/tar.sht
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Original file line number Diff line number Diff line change
Expand Up @@ -53,7 +53,7 @@ else
fi


#QSUB_1NODE.sht 0 "del-$srcdir" "" 8 "tar -zcf $dstdir/Plate1_0.tar.gz $srcdir/Plate1_0"
#QSUB_1NODE.sht 0 "del-$srcdir" "" 0 8 "tar -zcf $dstdir/Plate1_0.tar.gz $srcdir/Plate1_0"

#QSUB_1NODE.sht 0 "del-$srcdir" "" 8 "tar -zxf $srcdir/Plate1_0.tar.gz -C $dsttop"
#QSUB_1NODE.sht 0 "del-$srcdir" "" 0 8 "tar -zxf $srcdir/Plate1_0.tar.gz -C $dsttop"

2 changes: 1 addition & 1 deletion macros/thmdown.sht
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Original file line number Diff line number Diff line change
Expand Up @@ -15,7 +15,7 @@ for i in $(seq $1 $last)
do
echo $i
cd $i
QSUB_1NODE.sht 3 "lou-d-$i" "-o /dev/null" $nslot "make -f thumbs.down -j $nproc EXTRA='""'"
QSUB_1NODE.sht 3 "lou-d-$i" "" 1 $nslot "make -f thumbs.down -j $nproc EXTRA='""'"
cd ..
done

2 changes: 1 addition & 1 deletion macros/thmsame.sht
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Original file line number Diff line number Diff line change
Expand Up @@ -15,7 +15,7 @@ for i in $(seq $1 $last)
do
echo $i
cd $i
QSUB_1NODE.sht 2 "lou-s-$i" "-o /dev/null" $nslot "make -f thumbs.same -j $nproc EXTRA='""'"
QSUB_1NODE.sht 2 "lou-s-$i" "" 1 $nslot "make -f thumbs.same -j $nproc EXTRA='""'"
cd ..
done

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