From d563f4bd2c5e3bcb2f507c49fb380749db9baf46 Mon Sep 17 00:00:00 2001 From: alecw Date: Wed, 25 Nov 2009 19:25:21 +0000 Subject: [PATCH] Add IlluminaUtil to picard-private.jar git-svn-id: file:///humgen/gsa-scr1/gsa-engineering/svn_contents/trunk@2161 348d0f76-0448-11de-a6fe-93d51630548a --- packages/PicardPrivate.xml | 1 + .../picard-private-parts-1119.jar | Bin 62872 -> 73210 bytes 2 files changed, 1 insertion(+) diff --git a/packages/PicardPrivate.xml b/packages/PicardPrivate.xml index 816a1fccd..02f1549e0 100644 --- a/packages/PicardPrivate.xml +++ b/packages/PicardPrivate.xml @@ -8,6 +8,7 @@ edu.mit.broad.picard.genotype.geli.GeliFileWriter edu.mit.broad.picard.genotype.geli.GenotypeLikelihoods edu.mit.broad.picard.util.BasicTextFileParser + edu.mit.broad.picard.illumina.parser.IlluminaUtil edu.mit.broad.picard.util.Interval edu.mit.broad.picard.util.IntervalTree edu.mit.broad.picard.util.OverlapDetector diff --git a/settings/repository/edu.mit.broad/picard-private-parts-1119.jar b/settings/repository/edu.mit.broad/picard-private-parts-1119.jar index 097c70812c9f1220044e41ff6d34328296645f05..7dbaba49b2689ace8b1651631710a2e738479f68 100644 GIT binary patch delta 11698 zcmaJ{1z45K(&34T5m!l-(o1)y0Vts^w=1HGyQS`HOLxIyED5ZKXiVId>ru_hoLl-RFeDZ!k^*hC2M zP*4v-9HFTxt!!;w?X2vLU;eEFxQh>>%pZTKfFkI441X~?8aux=bN-7T5eh7o&$Ig* z2`4lZ)EfAg|A8OyZ+JS|h`@D+E73A~Rbca*yJzR^y_R;rGb9fC(N6Ls3X>)i_n4ZD-GTaaLw;lTW)-WA z_aeE#xXO>dHe%Lo^ew1U3BaUAjz5$50~lCpL~Q`C$xEW_-L2HBkwkBgcl+xw|JX>T zWR9O&gHI``iD6u6ClpbhM5u=%S}st7+JLIKJ6wlF?+F{TXAu(dj$W5{8F}WLvX~q> zb?QsKt-uLyQTk(#I6e7s?;csA-srTNpZO~Ta$A|9`e-(m9tE9db%4tZLa}eYJQ%a= zt!Nf(^mwVijKW~Q8-K*n6`7_*-+94%QZ1`uNVBVaCiNWk>f(sV)}uk(tgbcS)Vz?u z)W;f*Fh+pX^6_+SQ#giz#@g_E*gw662nF^&UxTAsHa;8_l+IHq zC?2ra%uHRY5(u>5FdkfUjR+!)1-pd}779x0f4b(MUQuvxk#umiHsW9H~$#sQ+@Jtm89GvECUrdKcr7wzkR_Q)E~1~XHpq#Mx-L0_VixTaOr2RE#sQxP*eYv@1+$Rgw-oG2qEal*1+o5TB@=~=q< zRxM&m2kmZ^5p%r~Yp1W+6S~8qfG-g^(1(S!EYO<9iEiqY9*T)tFMhF~y4{GSO#ob9 zz#{;@S0>OBDHmUrMZ6hxN@=!^G~UcW@W9}0X1V@iHtwAe{|qQS)CeSa@&q!nS>v3i<6`P$wqx_s(MYl;x*udl8~NrJ|{`ifX0*aBj*xKoqyNbtw7LQ1;Hby>$x zRX9oWq?NHgqqWGpf7}1GFl+8Mby;a`WNkLnjICTXqG+O&!KsNp99Sn2T>VI zEwCQ`wa*Z^_2#>nY^DGu_4`@=e5ePn>b@z>#>*t5iWSc8u*bTODY2-%QwinvWJACH zgk};p@y@DkRd9MNJ-@vYzb^tB*+7#n)7>Q9%%6PNi+tct`~~2%D)BW1z9Z2!TjZ%Y z{XtaSP{2jw_-S(7=$_{Fkrmc?t_M=^z#T^9*xP?LrXYqc^e@0wZg@IdtzLuij`yN zFyT5pAW6J|o?QEc8AGFQCQf-)7Lk+r?Im}kTWk@WN9nk?I3}SPd9~2u zmunBX)y+0vDxDm}k5RIG8T^Bo=G-mseewp8nWIaw+nGE}o1a1@C{q~LHpl~)Fua1i z_ZiH+>?|Tw8aX8EeVqGLY4}ITZc@v<{TMv79l5AI^HYgA%1kgyYGwCi0kK?P_j(QE zrf8M=wdig+OK?VaO^d7bL^Y96HhiHU!LTY`@D>j1_h;cGuaAHQyzVf75lQ=iNPxVt zi{%4)eq$$4bbKQyMzA{3|>hO+Ak`6myk#Q-83O3UG9H_QOxne>~}1@=w8rTUB|U$65gZG>g( z(chBzofDNiXZiJR?Txw609bFWdGdoipFP9DfoDtTR7li&&Qet4>UWkAO@bIv5|Cz8 zvt<9|Sbx@*m8}-jv$BSHRcSxC-KFyR1)M@TobQrdaOhkF#dhPu2oQ950jyYGjP9LU z($gbvAnJ*HufAZ(_;UIM4Eb6W<0mA11v?g#3ru{PfQy)demhL6N`M4<6p~HoS?yuZ z0gHQH!liFTrv$^6EwwI;w*0)(Ks;_uBOCQV30p!Rh`l(7S8}Cb>3C9FteEB1U9E5# z0fNEIGYYEQ-qp~!ch0XH>~`Gm5xEKY?PS#@eVKN?891`5(IefQr>R>Kyf&J{>x|-x z%r;qW`uI!>6Yu^-f+)bS+UaS6ogQ@gkBOgl*m#p_OtZ5t_tuNg_#4#uk?B$^4-NNC z)KfC44eV-hDQ%j>iqci`yo*~Xd?)fdcPl5+Ty!}cV?M?PUz?JueI$G~U!MwZQS}RR zg%_6&JDBtbwj|GYSSZP3*v-@v^UD*loKQIWZrxmoan}AQR-Ix1-$sf1ZVR2;{X0X3 zgjf()fOKT1!yCVQqQ2~Kjj5Ey@OOrsw2#63l&D9@n$JYD=FIb9ag^jUA$}F397&jcgw=HCchvZu&&a#z z3{S%vH?VMwLhCE@*mgd`&Xcctqt?_OY>i_$FhpgKF*@uZa*nzin#x4%dzhkl#DC;mTjQ;H& z*yUtGm>hq?7^Q?X7@mCb{*#KjX!Iu-I)Uo57Lew?Mx_3g@^NMzDVZ=Kx`iON$rPs& z6}(6nz*qon_}1Lb?dR?n#SCa$qe1^rKK0m<3P;?2>H}@sH{D&ZSjE)I0VjD#YLybS zT)H;_Dne(J#`Xm;S8PO4rqwi(g70vGG8t}tFzDjw3$$ z@(AKYOLc@8q4^6-`WSYB)_$aAo~c-rU|L`Y0y^GC#xal&D|^;3v$d18 zO~O(qw@o4>eFN~$mc6~eG~%n3-q6T*a%LS1JpxTFhKUTepVmV@?W3<+rVhMC3j22j zBBU#vp6J~?En9w3X7S^NeMKIDULTvoiUzeq_K?b9Ys5{W*gD_e@Os!(B)*?7E(1f0 z9DG0#`=9Uv?-!lLERF5$&1|LZUCiv?TDf?N8@m|)v2%>mRV6UP`*!c())`Ylh~)2# z>7^8do)Q*s;y2;Q$eCH|XWjmt**Mr1<*7YR+K|?_a9^00&3h4Eoq@0Sc=|ln12Z}p z9ByG0EUJGkEl`OA^vnsHdfs_l@ZP5X^hxJ#y*=xoXy^0}C3YRokw z&L`s4S@zCj)#>dVbj&Df%x2Wb6$aI7_pM&uiq5k3tM}J)zv21HL)499>SBESMYteF zd(klrX3+B+Z4;2acK*HGYtjbeS1q`H$1{Lu`r(_pk>AV?bc~mV1K%`|Db%1^tkm%o zdnWnLRM@Si3j?G&3J2IJ6u(NS7auSao^k{()5*OvY$bkJ`J>|zbZhX&elgzSZw1y=+91Um}w;u-_|NPD%MSx%=N6;QZ3xz zxFW_Qm>$U68LHV!XX>P6J3cxxB-USrjkJ+U6<%;(&;a0J=-l3FQ+=^Ga!h^gk}BL7 znIg5T)ow-ffv0d4Iei>N|HYwqIi7IwtDRr(y?XqMgDpJRr_>usE589e1%+tbn&`Aiw-DQTTX{&Ic+^|3C+81=fQ`uOqB2-ZB9twnTd!%CMDJp< z&>MJag_jfk!+54Qk2u^LEc`7-_8Sg_qYe+=Sj*mB3N6q9eL@{R9|(vyrrvk~Le@wE zx;7Pk6a28bmC#=BL|*$bkDTKvI7KdJ5x9KvvO@;Uh6`q~29Ow(UDIKC#P4Du3S=f{ z84IJIu*wHAQf9oASG6LH!|QBBjPh3QuWlc-9z&U0x0)0c4|Psn3M_fOq&YNPW3{Bo z25_`ho)!r@Rr{D;#2GB#B3AE3EOx-ul^D9|)zum&No?H7T;2Jp%5{1~t1$>J$mUB? 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