===========================================================
.___ __ __
_________________ __ __ __| _/|__|/ |_
/ ___\_` __ \__ \ | | \/ __ | | \\_ __\
/ /_/ > | \// __ \| | / /_/ | | || |
\___ /|__| (____ /____/\____ | |__||__|
/_____/ \/ \/
grep rough audit - static analysis tool
v2.8 written by @Wireghoul
=================================[justanotherhacker.com]===
r-bioc-shortread-1.48.0/R/readAligned.R-308- .check_type_and_length(filter, "SRFilter", NA)
r-bioc-shortread-1.48.0/R/readAligned.R:309: vals <- eval(formals(.readAligned_character)$type)
r-bioc-shortread-1.48.0/R/readAligned.R-310- if (!type %in% vals)
##############################################
r-bioc-shortread-1.48.0/R/readPrb.R-73- } else {
r-bioc-shortread-1.48.0/R/readPrb.R:74: vals <- eval(formals(.readPrb_character)$as)
r-bioc-shortread-1.48.0/R/readPrb.R-75- if (!as %in% vals)
##############################################
r-bioc-shortread-1.48.0/R/readQseq.R-70- } else {
r-bioc-shortread-1.48.0/R/readQseq.R:71: vals <- eval(formals(.readQseq_character)$as)
r-bioc-shortread-1.48.0/R/readQseq.R-72- if (!as %in% vals)
##############################################
r-bioc-shortread-1.48.0/configure-43-if test -z "$BASH_VERSION$ZSH_VERSION" \
r-bioc-shortread-1.48.0/configure:44: && (test "X`print -r -- $as_echo`" = "X$as_echo") 2>/dev/null; then
r-bioc-shortread-1.48.0/configure-45- as_echo='print -r --'
r-bioc-shortread-1.48.0/configure-46- as_echo_n='print -rn --'
r-bioc-shortread-1.48.0/configure:47:elif (test "X`printf %s $as_echo`" = "X$as_echo") 2>/dev/null; then
r-bioc-shortread-1.48.0/configure-48- as_echo='printf %s\n'
##############################################
r-bioc-shortread-1.48.0/configure-50-else
r-bioc-shortread-1.48.0/configure:51: if test "X`(/usr/ucb/echo -n -n $as_echo) 2>/dev/null`" = "X-n $as_echo"; then
r-bioc-shortread-1.48.0/configure-52- as_echo_body='eval /usr/ucb/echo -n "$1$as_nl"'
##############################################
r-bioc-shortread-1.48.0/configure-60- expr "X$arg" : "X\\(.*\\)$as_nl";
r-bioc-shortread-1.48.0/configure:61: arg=`expr "X$arg" : ".*$as_nl\\(.*\\)"`;;
r-bioc-shortread-1.48.0/configure-62- esac;
##############################################
r-bioc-shortread-1.48.0/configure-197- eval 'test \"x\$as_lineno_1'\$as_run'\" != \"x\$as_lineno_2'\$as_run'\" &&
r-bioc-shortread-1.48.0/configure:198: test \"x\`expr \$as_lineno_1'\$as_run' + 1\`\" = \"x\$as_lineno_2'\$as_run'\"' || exit 1
r-bioc-shortread-1.48.0/configure-199-test \$(( 1 + 1 )) = 2 || exit 1"
##############################################
r-bioc-shortread-1.48.0/configure-324- case $as_dir in #(
r-bioc-shortread-1.48.0/configure:325: *\'*) as_qdir=`$as_echo "$as_dir" | sed "s/'/'\\\\\\\\''/g"`;; #'(
r-bioc-shortread-1.48.0/configure-326- *) as_qdir=$as_dir;;
##############################################
r-bioc-shortread-1.48.0/configure-397- {
r-bioc-shortread-1.48.0/configure:398: as_val=`expr "$@" || test $? -eq 1`
r-bioc-shortread-1.48.0/configure-399- }
##############################################
r-bioc-shortread-1.48.0/configure-404-# ----------------------------------------
r-bioc-shortread-1.48.0/configure:405:# Output "`basename $0`: error: ERROR" to stderr. If LINENO and LOG_FD are
r-bioc-shortread-1.48.0/configure-406-# provided, also output the error to LOG_FD, referencing LINENO. Then exit the
##############################################
r-bioc-shortread-1.48.0/configure-467- eval 'test "x$as_lineno_1'$as_run'" != "x$as_lineno_2'$as_run'" &&
r-bioc-shortread-1.48.0/configure:468: test "x`expr $as_lineno_1'$as_run' + 1`" = "x$as_lineno_2'$as_run'"' || {
r-bioc-shortread-1.48.0/configure-469- # Blame Lee E. McMahon (1931-1989) for sed's syntax. :-)
##############################################
r-bioc-shortread-1.48.0/configure-746- case $ac_option in
r-bioc-shortread-1.48.0/configure:747: *=?*) ac_optarg=`expr "X$ac_option" : '[^=]*=\(.*\)'` ;;
r-bioc-shortread-1.48.0/configure-748- *=) ac_optarg= ;;
##############################################
r-bioc-shortread-1.48.0/configure-790- -disable-* | --disable-*)
r-bioc-shortread-1.48.0/configure:791: ac_useropt=`expr "x$ac_option" : 'x-*disable-\(.*\)'`
r-bioc-shortread-1.48.0/configure-792- # Reject names that are not valid shell variable names.
##############################################
r-bioc-shortread-1.48.0/configure-795- ac_useropt_orig=$ac_useropt
r-bioc-shortread-1.48.0/configure:796: ac_useropt=`$as_echo "$ac_useropt" | sed 's/[-+.]/_/g'`
r-bioc-shortread-1.48.0/configure-797- case $ac_user_opts in
##############################################
r-bioc-shortread-1.48.0/configure-816- -enable-* | --enable-*)
r-bioc-shortread-1.48.0/configure:817: ac_useropt=`expr "x$ac_option" : 'x-*enable-\([^=]*\)'`
r-bioc-shortread-1.48.0/configure-818- # Reject names that are not valid shell variable names.
##############################################
r-bioc-shortread-1.48.0/configure-821- ac_useropt_orig=$ac_useropt
r-bioc-shortread-1.48.0/configure:822: ac_useropt=`$as_echo "$ac_useropt" | sed 's/[-+.]/_/g'`
r-bioc-shortread-1.48.0/configure-823- case $ac_user_opts in
##############################################
r-bioc-shortread-1.48.0/configure-1020- -with-* | --with-*)
r-bioc-shortread-1.48.0/configure:1021: ac_useropt=`expr "x$ac_option" : 'x-*with-\([^=]*\)'`
r-bioc-shortread-1.48.0/configure-1022- # Reject names that are not valid shell variable names.
##############################################
r-bioc-shortread-1.48.0/configure-1025- ac_useropt_orig=$ac_useropt
r-bioc-shortread-1.48.0/configure:1026: ac_useropt=`$as_echo "$ac_useropt" | sed 's/[-+.]/_/g'`
r-bioc-shortread-1.48.0/configure-1027- case $ac_user_opts in
##############################################
r-bioc-shortread-1.48.0/configure-1036- -without-* | --without-*)
r-bioc-shortread-1.48.0/configure:1037: ac_useropt=`expr "x$ac_option" : 'x-*without-\(.*\)'`
r-bioc-shortread-1.48.0/configure-1038- # Reject names that are not valid shell variable names.
##############################################
r-bioc-shortread-1.48.0/configure-1041- ac_useropt_orig=$ac_useropt
r-bioc-shortread-1.48.0/configure:1042: ac_useropt=`$as_echo "$ac_useropt" | sed 's/[-+.]/_/g'`
r-bioc-shortread-1.48.0/configure-1043- case $ac_user_opts in
##############################################
r-bioc-shortread-1.48.0/configure-1074- *=*)
r-bioc-shortread-1.48.0/configure:1075: ac_envvar=`expr "x$ac_option" : 'x\([^=]*\)='`
r-bioc-shortread-1.48.0/configure-1076- # Reject names that are not valid shell variable names.
##############################################
r-bioc-shortread-1.48.0/configure-1095-if test -n "$ac_prev"; then
r-bioc-shortread-1.48.0/configure:1096: ac_option=--`echo $ac_prev | sed 's/_/-/g'`
r-bioc-shortread-1.48.0/configure-1097- as_fn_error $? "missing argument to $ac_option"
##############################################
r-bioc-shortread-1.48.0/configure-1117- */ )
r-bioc-shortread-1.48.0/configure:1118: ac_val=`expr "X$ac_val" : 'X\(.*[^/]\)' \| "X$ac_val" : 'X\(.*\)'`
r-bioc-shortread-1.48.0/configure-1119- eval $ac_var=\$ac_val;;
##############################################
r-bioc-shortread-1.48.0/configure-1152-ac_ls_di=`ls -di .` &&
r-bioc-shortread-1.48.0/configure:1153:ac_pwd_ls_di=`cd "$ac_pwd" && ls -di .` ||
r-bioc-shortread-1.48.0/configure-1154- as_fn_error $? "working directory cannot be determined"
##############################################
r-bioc-shortread-1.48.0/configure-1208-case $srcdir in
r-bioc-shortread-1.48.0/configure:1209:*/) srcdir=`expr "X$srcdir" : 'X\(.*[^/]\)' \| "X$srcdir" : 'X\(.*\)'`;;
r-bioc-shortread-1.48.0/configure-1210-esac
##############################################
r-bioc-shortread-1.48.0/configure-1251-By default, \`make install' will install all the files in
r-bioc-shortread-1.48.0/configure:1252:\`$ac_default_prefix/bin', \`$ac_default_prefix/lib' etc. You can specify
r-bioc-shortread-1.48.0/configure:1253:an installation prefix other than \`$ac_default_prefix' using \`--prefix',
r-bioc-shortread-1.48.0/configure-1254-for instance \`--prefix=\$HOME'.
##############################################
r-bioc-shortread-1.48.0/configure-1316-*)
r-bioc-shortread-1.48.0/configure:1317: ac_dir_suffix=/`$as_echo "$ac_dir" | sed 's|^\.[\\/]||'`
r-bioc-shortread-1.48.0/configure-1318- # A ".." for each directory in $ac_dir_suffix.
r-bioc-shortread-1.48.0/configure:1319: ac_top_builddir_sub=`$as_echo "$ac_dir_suffix" | sed 's|/[^\\/]*|/..|g;s|/||'`
r-bioc-shortread-1.48.0/configure-1320- case $ac_top_builddir_sub in
##############################################
r-bioc-shortread-1.48.0/configure-1829- *\'*)
r-bioc-shortread-1.48.0/configure:1830: ac_arg=`$as_echo "$ac_arg" | sed "s/'/'\\\\\\\\''/g"` ;;
r-bioc-shortread-1.48.0/configure-1831- esac
##############################################
r-bioc-shortread-1.48.0/configure-1912- case $ac_val in
r-bioc-shortread-1.48.0/configure:1913: *\'\''*) ac_val=`$as_echo "$ac_val" | sed "s/'\''/'\''\\\\\\\\'\'''\''/g"`;;
r-bioc-shortread-1.48.0/configure-1914- esac
##############################################
r-bioc-shortread-1.48.0/configure-1927- case $ac_val in
r-bioc-shortread-1.48.0/configure:1928: *\'\''*) ac_val=`$as_echo "$ac_val" | sed "s/'\''/'\''\\\\\\\\'\'''\''/g"`;;
r-bioc-shortread-1.48.0/configure-1929- esac
##############################################
r-bioc-shortread-1.48.0/configure-2047- set,)
r-bioc-shortread-1.48.0/configure:2048: { $as_echo "$as_me:${as_lineno-$LINENO}: error: \`$ac_var' was set to \`$ac_old_val' in the previous run" >&5
r-bioc-shortread-1.48.0/configure:2049:$as_echo "$as_me: error: \`$ac_var' was set to \`$ac_old_val' in the previous run" >&2;}
r-bioc-shortread-1.48.0/configure-2050- ac_cache_corrupted=: ;;
##############################################
r-bioc-shortread-1.48.0/configure-2058- # differences in whitespace do not lead to failure.
r-bioc-shortread-1.48.0/configure:2059: ac_old_val_w=`echo x $ac_old_val`
r-bioc-shortread-1.48.0/configure:2060: ac_new_val_w=`echo x $ac_new_val`
r-bioc-shortread-1.48.0/configure-2061- if test "$ac_old_val_w" != "$ac_new_val_w"; then
##############################################
r-bioc-shortread-1.48.0/configure-2078- case $ac_new_val in
r-bioc-shortread-1.48.0/configure:2079: *\'*) ac_arg=$ac_var=`$as_echo "$ac_new_val" | sed "s/'/'\\\\\\\\''/g"` ;;
r-bioc-shortread-1.48.0/configure-2080- *) ac_arg=$ac_var=$ac_new_val ;;
##############################################
r-bioc-shortread-1.48.0/configure-2113-
r-bioc-shortread-1.48.0/configure:2114:CC=`"${R_HOME}/bin/R" CMD config CC`
r-bioc-shortread-1.48.0/configure:2115:CFLAGS=`"${R_HOME}/bin/R" CMD config CFLAGS`
r-bioc-shortread-1.48.0/configure:2116:LDFLAGS=`"${R_HOME}/bin/R" CMD config LDFLAGS`
r-bioc-shortread-1.48.0/configure-2117-
##############################################
r-bioc-shortread-1.48.0/configure-2463-$as_echo_n "checking whether the C compiler works... " >&6; }
r-bioc-shortread-1.48.0/configure:2464:ac_link_default=`$as_echo "$ac_link" | sed 's/ -o *conftest[^ ]*//'`
r-bioc-shortread-1.48.0/configure-2465-
##############################################
r-bioc-shortread-1.48.0/configure-2507- then :; else
r-bioc-shortread-1.48.0/configure:2508: ac_cv_exeext=`expr "$ac_file" : '[^.]*\(\..*\)'`
r-bioc-shortread-1.48.0/configure-2509- fi
##############################################
r-bioc-shortread-1.48.0/configure-2567- *.$ac_ext | *.xcoff | *.tds | *.d | *.pdb | *.xSYM | *.bb | *.bbg | *.map | *.inf | *.dSYM | *.o | *.obj ) ;;
r-bioc-shortread-1.48.0/configure:2568: *.* ) ac_cv_exeext=`expr "$ac_file" : '[^.]*\(\..*\)'`
r-bioc-shortread-1.48.0/configure-2569- break;;
##############################################
r-bioc-shortread-1.48.0/configure-2676- *.$ac_ext | *.xcoff | *.tds | *.d | *.pdb | *.xSYM | *.bb | *.bbg | *.map | *.inf | *.dSYM ) ;;
r-bioc-shortread-1.48.0/configure:2677: *) ac_cv_objext=`expr "$ac_file" : '.*\.\(.*\)'`
r-bioc-shortread-1.48.0/configure-2678- break;;
##############################################
r-bioc-shortread-1.48.0/configure-3111- # Check for GNU $ac_path_GREP
r-bioc-shortread-1.48.0/configure:3112:case `"$ac_path_GREP" --version 2>&1` in
r-bioc-shortread-1.48.0/configure-3113-*GNU*)
##############################################
r-bioc-shortread-1.48.0/configure-3177- # Check for GNU $ac_path_EGREP
r-bioc-shortread-1.48.0/configure:3178:case `"$ac_path_EGREP" --version 2>&1` in
r-bioc-shortread-1.48.0/configure-3179-*GNU*)
##############################################
r-bioc-shortread-1.48.0/configure-3338-do :
r-bioc-shortread-1.48.0/configure:3339: as_ac_Header=`$as_echo "ac_cv_header_$ac_header" | $as_tr_sh`
r-bioc-shortread-1.48.0/configure-3340-ac_fn_c_check_header_compile "$LINENO" "$ac_header" "$as_ac_Header" "$ac_includes_default
##############################################
r-bioc-shortread-1.48.0/configure-3343- cat >>confdefs.h <<_ACEOF
r-bioc-shortread-1.48.0/configure:3344:#define `$as_echo "HAVE_$ac_header" | $as_tr_cpp` 1
r-bioc-shortread-1.48.0/configure-3345-_ACEOF
##############################################
r-bioc-shortread-1.48.0/configure-3512-'
r-bioc-shortread-1.48.0/configure:3513:DEFS=`sed -n "$ac_script" confdefs.h`
r-bioc-shortread-1.48.0/configure-3514-
##############################################
r-bioc-shortread-1.48.0/configure-3521- ac_script='s/\$U\././;s/\.o$//;s/\.obj$//'
r-bioc-shortread-1.48.0/configure:3522: ac_i=`$as_echo "$ac_i" | sed "$ac_script"`
r-bioc-shortread-1.48.0/configure-3523- # 2. Prepend LIBOBJDIR. When used with automake>=1.10 LIBOBJDIR
##############################################
r-bioc-shortread-1.48.0/configure-3588-if test -z "$BASH_VERSION$ZSH_VERSION" \
r-bioc-shortread-1.48.0/configure:3589: && (test "X`print -r -- $as_echo`" = "X$as_echo") 2>/dev/null; then
r-bioc-shortread-1.48.0/configure-3590- as_echo='print -r --'
r-bioc-shortread-1.48.0/configure-3591- as_echo_n='print -rn --'
r-bioc-shortread-1.48.0/configure:3592:elif (test "X`printf %s $as_echo`" = "X$as_echo") 2>/dev/null; then
r-bioc-shortread-1.48.0/configure-3593- as_echo='printf %s\n'
##############################################
r-bioc-shortread-1.48.0/configure-3595-else
r-bioc-shortread-1.48.0/configure:3596: if test "X`(/usr/ucb/echo -n -n $as_echo) 2>/dev/null`" = "X-n $as_echo"; then
r-bioc-shortread-1.48.0/configure-3597- as_echo_body='eval /usr/ucb/echo -n "$1$as_nl"'
##############################################
r-bioc-shortread-1.48.0/configure-3605- expr "X$arg" : "X\\(.*\\)$as_nl";
r-bioc-shortread-1.48.0/configure:3606: arg=`expr "X$arg" : ".*$as_nl\\(.*\\)"`;;
r-bioc-shortread-1.48.0/configure-3607- esac;
##############################################
r-bioc-shortread-1.48.0/configure-3682-# ----------------------------------------
r-bioc-shortread-1.48.0/configure:3683:# Output "`basename $0`: error: ERROR" to stderr. If LINENO and LOG_FD are
r-bioc-shortread-1.48.0/configure-3684-# provided, also output the error to LOG_FD, referencing LINENO. Then exit the
##############################################
r-bioc-shortread-1.48.0/configure-3754- {
r-bioc-shortread-1.48.0/configure:3755: as_val=`expr "$@" || test $? -eq 1`
r-bioc-shortread-1.48.0/configure-3756- }
##############################################
r-bioc-shortread-1.48.0/configure-3858- case $as_dir in #(
r-bioc-shortread-1.48.0/configure:3859: *\'*) as_qdir=`$as_echo "$as_dir" | sed "s/'/'\\\\\\\\''/g"`;; #'(
r-bioc-shortread-1.48.0/configure-3860- *) as_qdir=$as_dir;;
##############################################
r-bioc-shortread-1.48.0/configure-3980-cat >>$CONFIG_STATUS <<_ACEOF || ac_write_fail=1
r-bioc-shortread-1.48.0/configure:3981:ac_cs_config="`$as_echo "$ac_configure_args" | sed 's/^ //; s/[\\""\`\$]/\\\\&/g'`"
r-bioc-shortread-1.48.0/configure-3982-ac_cs_version="\\
##############################################
r-bioc-shortread-1.48.0/configure-4002- --*=?*)
r-bioc-shortread-1.48.0/configure:4003: ac_option=`expr "X$1" : 'X\([^=]*\)='`
r-bioc-shortread-1.48.0/configure:4004: ac_optarg=`expr "X$1" : 'X[^=]*=\(.*\)'`
r-bioc-shortread-1.48.0/configure-4005- ac_shift=:
##############################################
r-bioc-shortread-1.48.0/configure-4007- --*=)
r-bioc-shortread-1.48.0/configure:4008: ac_option=`expr "X$1" : 'X\([^=]*\)='`
r-bioc-shortread-1.48.0/configure-4009- ac_optarg=
##############################################
r-bioc-shortread-1.48.0/configure-4031- case $ac_optarg in
r-bioc-shortread-1.48.0/configure:4032: *\'*) ac_optarg=`$as_echo "$ac_optarg" | sed "s/'/'\\\\\\\\''/g"` ;;
r-bioc-shortread-1.48.0/configure-4033- '') as_fn_error $? "missing file argument" ;;
##############################################
r-bioc-shortread-1.48.0/configure-4147-fi
r-bioc-shortread-1.48.0/configure:4148:ac_cs_awk_cr=`$AWK 'BEGIN { print "a\rb" }' </dev/null 2>/dev/null`
r-bioc-shortread-1.48.0/configure-4149-if test "$ac_cs_awk_cr" = "a${ac_cr}b"; then
##############################################
r-bioc-shortread-1.48.0/configure-4164- as_fn_error $? "could not make $CONFIG_STATUS" "$LINENO" 5
r-bioc-shortread-1.48.0/configure:4165:ac_delim_num=`echo "$ac_subst_vars" | grep -c '^'`
r-bioc-shortread-1.48.0/configure-4166-ac_delim='%!_!# '
##############################################
r-bioc-shortread-1.48.0/configure-4170-
r-bioc-shortread-1.48.0/configure:4171: ac_delim_n=`sed -n "s/.*$ac_delim\$/X/p" conf$$subs.awk | grep -c X`
r-bioc-shortread-1.48.0/configure-4172- if test $ac_delim_n = $ac_delim_num; then
##############################################
r-bioc-shortread-1.48.0/configure-4332- esac
r-bioc-shortread-1.48.0/configure:4333: case $ac_f in *\'*) ac_f=`$as_echo "$ac_f" | sed "s/'/'\\\\\\\\''/g"`;; esac
r-bioc-shortread-1.48.0/configure-4334- as_fn_append ac_file_inputs " '$ac_f'"
##############################################
r-bioc-shortread-1.48.0/configure-4391-*)
r-bioc-shortread-1.48.0/configure:4392: ac_dir_suffix=/`$as_echo "$ac_dir" | sed 's|^\.[\\/]||'`
r-bioc-shortread-1.48.0/configure-4393- # A ".." for each directory in $ac_dir_suffix.
r-bioc-shortread-1.48.0/configure:4394: ac_top_builddir_sub=`$as_echo "$ac_dir_suffix" | sed 's|/[^\\/]*|/..|g;s|/||'`
r-bioc-shortread-1.48.0/configure-4395- case $ac_top_builddir_sub in
##############################################
r-bioc-shortread-1.48.0/configure-4443-/@mandir@/p'
r-bioc-shortread-1.48.0/configure:4444:case `eval "sed -n \"\$ac_sed_dataroot\" $ac_file_inputs"` in
r-bioc-shortread-1.48.0/configure-4445-*datarootdir*) ac_datarootdir_seen=yes;;
##############################################
r-bioc-shortread-1.48.0/configure-4460-
r-bioc-shortread-1.48.0/configure:4461:# Neutralize VPATH when `$srcdir' = `.'.
r-bioc-shortread-1.48.0/configure-4462-# Shell code in configure.ac might set extrasub.
##############################################
r-bioc-shortread-1.48.0/configure-4486-test -z "$ac_datarootdir_hack$ac_datarootdir_seen" &&
r-bioc-shortread-1.48.0/configure:4487: { ac_out=`sed -n '/\${datarootdir}/p' "$ac_tmp/out"`; test -n "$ac_out"; } &&
r-bioc-shortread-1.48.0/configure-4488- { ac_out=`sed -n '/^[ ]*datarootdir[ ]*:*=/p' \
##############################################
r-bioc-shortread-1.48.0/configure.ac-9-
r-bioc-shortread-1.48.0/configure.ac:10:CC=`"${R_HOME}/bin/R" CMD config CC`
r-bioc-shortread-1.48.0/configure.ac:11:CFLAGS=`"${R_HOME}/bin/R" CMD config CFLAGS`
r-bioc-shortread-1.48.0/configure.ac:12:LDFLAGS=`"${R_HOME}/bin/R" CMD config LDFLAGS`
r-bioc-shortread-1.48.0/configure.ac-13-
##############################################
r-bioc-shortread-1.48.0/src/sampler.c-326-
r-bioc-shortread-1.48.0/src/sampler.c:327:#define SAMPLER(s) ((struct sampler *) R_ExternalPtrAddr(s))
r-bioc-shortread-1.48.0/src/sampler.c-328-
##############################################
r-bioc-shortread-1.48.0/src/sampler.c-472-
r-bioc-shortread-1.48.0/src/sampler.c:473:#define STREAMER(s) ((struct streamer *) R_ExternalPtrAddr(s))
r-bioc-shortread-1.48.0/src/sampler.c-474-
##############################################
r-bioc-shortread-1.48.0/src/xsnap.c-171-{
r-bioc-shortread-1.48.0/src/xsnap.c:172: struct _Buffer *buffer = R_ExternalPtrAddr(xsnap);
r-bioc-shortread-1.48.0/src/xsnap.c-173- if (!buffer)
##############################################
r-bioc-shortread-1.48.0/src/xsnap.c-190-{
r-bioc-shortread-1.48.0/src/xsnap.c:191: _Buffer_append(R_ExternalPtrAddr(snap), str);
r-bioc-shortread-1.48.0/src/xsnap.c-192-}
##############################################
r-bioc-shortread-1.48.0/src/xsnap.c-253-{
r-bioc-shortread-1.48.0/src/xsnap.c:254: struct _Buffer *buffer = (struct _Buffer *) R_ExternalPtrAddr(snap);
r-bioc-shortread-1.48.0/src/xsnap.c-255- _Buffer_encode(buffer);
##############################################
r-bioc-shortread-1.48.0/vignettes/ShortRead_and_HilbertVis.Rnw_-393-
r-bioc-shortread-1.48.0/vignettes/ShortRead_and_HilbertVis.Rnw_:394:The two buttons ``Coarser'' and ``Finer'' allow to adjust the pixel size. Initially, each bin is represented by one pixel at your monitor's resolution, and there are $512\times 512$ pixels in the image. Pressing ``Coarser'' once blows up each image pixel to a $2\times 2$ square of monitor pixels, which allows for easier viewing but reduces the number of displayed image pixels to $256\times 256$, i.e., each pixel now represents four times as many base pairs.
r-bioc-shortread-1.48.0/vignettes/ShortRead_and_HilbertVis.Rnw_-395-