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<h3>
Nilesh Patra pushed to branch upstream
at <a href="https://salsa.debian.org/med-team/subread">Debian Med / subread</a>
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<h4>
Commits:
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<ul>
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<strong><a href="https://salsa.debian.org/med-team/subread/-/commit/688c69997ffd190498101d6aaf3ddeb7a3a72ee2">688c6999</a></strong>
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<span>by Nilesh Patra</span>
<i>at 2021-07-19T22:51:22+05:30</i>
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<pre class="commit-message" style="white-space: pre-wrap; margin: 0;">New upstream version 2.0.3+dfsg</pre>
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<h4>3 changed files:</h4>
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<a href="#fda3484edf8db0684440157ce0b110d784d42704">
README.txt
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<a href="#76cc7b82fd823387133c6778766e61c15828100c">
src/makefile.version
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<a href="#2ec8748eb117e101c7a40d2a3e3c5d8cf22f9dd9">
src/readSummary.c
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<h4>Changes:</h4>
<li id="fda3484edf8db0684440157ce0b110d784d42704">
<a href="https://salsa.debian.org/med-team/subread/-/commit/688c69997ffd190498101d6aaf3ddeb7a3a72ee2#fda3484edf8db0684440157ce0b110d784d42704"><strong>README.txt</strong></a>
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<pre style="margin: 0;"> <span id="LC1" class="line" lang="plaintext">Installation</span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="plaintext">--------------</span>
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<pre style="margin: 0;">-<span id="LC3" class="line" lang="plaintext">You may use Subread package by directly downloading a binary release suitable for your operating system (no compilation is <span class="idiff left">need</span>ed), or <span class="idiff right">you may build it from the source. Here we describe how to install it</span> from the source.</span>
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<pre style="margin: 0;">+<span id="LC3" class="line" lang="plaintext">You may use Subread package by directly downloading a binary release suitable for your operating system (no compilation is <span class="idiff left">requir</span>ed), or <span class="idiff right">by installing it to your computer</span> from the source.</span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC5" class="line" lang="plaintext"><span class="idiff left right">Download the latest version of Subread</span> package from http://subread.sourceforge.net/. The source release includes a keyword 'source' in the name of the tar ball. Uncompress the tar ball, enter the 'src' directory and issue one of the following commands to build it.</span>
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<pre style="margin: 0;">+<span id="LC5" class="line" lang="plaintext"><span class="idiff left right">Here we describe how to install it from the source. You will need to download the source release of the</span> package from http://subread.sourceforge.net/. The source release includes a keyword 'source' in the name of the tar ball. Uncompress the tar ball, enter the 'src' directory and issue one of the following commands to build it.</span>
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<pre style="margin: 0;"> <span id="LC6" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC7" class="line" lang="plaintext">*** for Linux OS, use command:</span>
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<pre style="margin: 0;"> <span id="LC8" class="line" lang="plaintext"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -12,13 +12,12 @@ make -f Makefile.Linux</td>
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<pre style="margin: 0;"> <span id="LC13" class="line" lang="plaintext">make -f Makefile.Windows</span>
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<pre style="margin: 0;"> <span id="LC14" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC15" class="line" lang="plaintext"><span class="idiff left">You need to have ``gcc" and ``make" in %PATH% to build the Windows-version of Subread. It is recommended</span> to <span class="idiff">download and install Mingw-w64 before building Subread, for that Mingw-w64 contains all the necessary</span> pro<span class="idiff">r</span>gams an<span class="idiff right">d libraries</span>.</span>
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<pre style="margin: 0;">+<span id="LC15" class="line" lang="plaintext"><span class="idiff left">When building Subread on a Windows computer, the ``gcc" and ``make" programs will be used. The paths to these</span> t<span class="idiff">w</span>o <span class="idiff">programs need to be included in your environment variable PATH so that these two</span> prog<span class="idiff">r</span>ams <span class="idiff">c</span>an<span class="idiff right"> be accessed</span>.</span>
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<pre style="margin: 0;"> <span id="LC16" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC17" class="line" lang="plaintext"><span class="idiff left right">If you have had Mingw-w64 installed, you should use this command: </span></span>
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<pre style="margin: 0;">+<span id="LC17" class="line" lang="plaintext"><span class="idiff left right">An alternative way to build Subread on a Windows computer is to use Mingw-w64. This is often a more reliable approach. After installing Mingw-w64, you can just use the following command to build Subread. Note that the path to the two mingw_64 executables ``mingw32-make.exe" and ``gcc.exe" should also be included in your environment variable PATH.</span></span>
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<pre style="margin: 0;"> <span id="LC18" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC19" class="line" lang="plaintext">mingw32-make -f Makefile.Windows</span>
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<pre style="margin: 0;">-<span id="LC21" class="line" lang="plaintext">Still, you need to make sure that mingw_64/bin, which contains mingw32-make.exe and gcc.exe, is in %PATH%. We strongly recommend to build the 64-bit version Subread programs (by using the 64-bit Mingw package) because the 32-bit version Subread programs have very limited memory access.</span>
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<pre style="margin: 0;"> <span id="LC22" class="line" lang="plaintext">*** For Mac OS, use command:</span>
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<pre style="margin: 0;"> <span id="LC23" class="line" lang="plaintext"></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -28,56 +27,17 @@ make -f Makefile.MacOS</td>
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<pre style="margin: 0;"> <span id="LC27" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC28" class="line" lang="plaintext">gmake -f Makefile.FreeBSD</span>
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<pre style="margin: 0;"> <span id="LC29" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC31" class="line" lang="plaintext">If the build is successful, a new directory called 'bin' will be created under the home directory of the package (ie. one level up from 'src' directory). The 'bin directory contains all the generated executables. To enable easy access to these executables, you may copy the executables to a system directory such as '/usr/bin' or add the path to the executables to your search path<span class="idiff left"> (add path to</span> your environment variable <span class="idiff">`</span>PATH<span class="idiff right">')</span>.</span>
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<pre style="margin: 0;">+<span id="LC30" class="line" lang="plaintext">If the build is successful, a new directory called 'bin' will be created under the home directory of the package (ie. one level up from 'src' directory). The 'bin directory contains all the generated executables. To enable easy access to these executables, you may copy the executables to a system directory such as '/usr/bin' or add the path to the executables to your search path<span class="idiff left right">s that are usually stored in</span> your environment variable PATH.</span>
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<pre style="margin: 0;"> <span id="LC31" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC32" class="line" lang="plaintext">Content</span>
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<pre style="margin: 0;"> <span id="LC33" class="line" lang="plaintext">--------------</span>
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<pre style="margin: 0;">-<span id="LC35" class="line" lang="plaintext">annotation Directory including NCBI RefSeq gene annotations for genomes 'hg19', 'hg38', 'mm10' and 'mm9'.</span>
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<pre style="margin: 0;">-<span id="LC36" class="line" lang="plaintext"> Each row is an exon. Entrez gene identifiers and chromosomal coordinates are provided for each exon.</span>
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<pre style="margin: 0;">-<span id="LC37" class="line" lang="plaintext">bin Directory including executables after compilation (or directly available from a binary release). </span>
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<pre style="margin: 0;">-<span id="LC38" class="line" lang="plaintext">doc Directory including the users manual.</span>
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<pre style="margin: 0;">-<span id="LC39" class="line" lang="plaintext">LICENSE The license agreement for using this package.</span>
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<pre style="margin: 0;">-<span id="LC40" class="line" lang="plaintext">README.txt This file.</span>
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<pre style="margin: 0;">-<span id="LC41" class="line" lang="plaintext">src Directory including source code (binary releases do not have this directory).</span>
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<pre style="margin: 0;">-<span id="LC42" class="line" lang="plaintext">test Directory including test data and scripts.</span>
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<pre style="margin: 0;">-<span id="LC43" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC44" class="line" lang="plaintext">A Quick Start</span>
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<pre style="margin: 0;">-<span id="LC45" class="line" lang="plaintext">--------------</span>
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<pre style="margin: 0;">-<span id="LC46" class="line" lang="plaintext">Build index for a reference genome:</span>
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<pre style="margin: 0;">-<span id="LC47" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC48" class="line" lang="plaintext"> subread-buildindex -o my_index chr1.fa chr2.fa ...</span>
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<pre style="margin: 0;">-<span id="LC49" class="line" lang="plaintext"> (You may provide a single FASTA file including all chromosomal sequences).</span>
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<pre style="margin: 0;">-<span id="LC50" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC51" class="line" lang="plaintext">Align a single-end RNA-seq dataset to the reference genome:</span>
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<pre style="margin: 0;">-<span id="LC52" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC53" class="line" lang="plaintext"> subread-align -i my_index -r reads.txt -t 0 -o subread_results.bam</span>
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<pre style="margin: 0;">-<span id="LC54" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC55" class="line" lang="plaintext">Align a paired-end genomic DNA-seq dataset to the reference genome:</span>
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<pre style="margin: 0;">-<span id="LC56" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC57" class="line" lang="plaintext"> subread-align -i my_index -r reads1.txt -R reads2.txt -t 1 -o subread_results_PE.bam</span>
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<pre style="margin: 0;">-<span id="LC58" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC59" class="line" lang="plaintext">Detect exon-exon junctions from a paired-end RNA-seq dataset (read mapping results are also produced):</span>
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<pre style="margin: 0;">-<span id="LC60" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC61" class="line" lang="plaintext"> subjunc -i my_index -r reads1.txt -R reads2.txt -o subjunc_results.bam</span>
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<pre style="margin: 0;">-<span id="LC62" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC63" class="line" lang="plaintext">Assign mapped RNA-seq reads to mm10 genes using inbuilt annotation:</span>
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<pre style="margin: 0;">-<span id="LC64" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC65" class="line" lang="plaintext"> featureCounts -a ../annotation/mm10_RefSeq_exon.txt -F 'SAF' -o counts.txt subread_results.bam</span>
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<pre style="margin: 0;">-<span id="LC66" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC67" class="line" lang="plaintext">Assign mapped RNA-seq reads to hg38 genes using a public GTF annotation:</span>
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68
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<pre style="margin: 0;">-<span id="LC68" class="line" lang="plaintext"></span>
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69
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<pre style="margin: 0;">-<span id="LC69" class="line" lang="plaintext"> featureCounts -a hg38_annotation.gtf -o counts.txt subread_results.bam</span>
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70
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<pre style="margin: 0;">-<span id="LC70" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC71" class="line" lang="plaintext">Tutorials</span>
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<pre style="margin: 0;">-<span id="LC72" class="line" lang="plaintext">-------------------</span>
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<pre style="margin: 0;">-<span id="LC73" class="line" lang="plaintext">A short tutorial for Subread - http://bioinf.wehi.edu.au/subread</span>
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<pre style="margin: 0;">-<span id="LC74" class="line" lang="plaintext">A short tutorial for Subjunc - http://bioinf.wehi.edu.au/subjunc</span>
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<pre style="margin: 0;">-<span id="LC75" class="line" lang="plaintext">A short tutorial for featureCounts - http://bioinf.wehi.edu.au/featureCounts</span>
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<pre style="margin: 0;">-<span id="LC76" class="line" lang="plaintext">A short tutorial for exactSNP - http://bioinf.wehi.edu.au/exactSNP</span>
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<pre style="margin: 0;">-<span id="LC77" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">-<span id="LC78" class="line" lang="plaintext">Users Guide</span>
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<pre style="margin: 0;">-<span id="LC79" class="line" lang="plaintext">--------------</span>
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<pre style="margin: 0;">-<span id="LC80" class="line" lang="plaintext">Users Guide can be found in the 'doc' subdirectory of this software package or via URL (http://bioinf.wehi.edu.au/subread-package/SubreadUsersGuide.pdf).</span>
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<pre style="margin: 0;">+<span id="LC34" class="line" lang="plaintext">annotation Directory including NCBI RefSeq gene annotations for multiple versions of human and mouse genomes.</span>
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<pre style="margin: 0;">+<span id="LC35" class="line" lang="plaintext">bin Directory including executables after compilation (or directly available from a binary release). </span>
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<pre style="margin: 0;">+<span id="LC36" class="line" lang="plaintext">doc Directory including the Subread Users Guide.</span>
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<pre style="margin: 0;">+<span id="LC37" class="line" lang="plaintext">LICENSE The license agreement for using this package.</span>
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<pre style="margin: 0;">+<span id="LC38" class="line" lang="plaintext">README.txt This file.</span>
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<pre style="margin: 0;">+<span id="LC39" class="line" lang="plaintext">src Directory including source code (binary releases do not have this directory).</span>
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<pre style="margin: 0;">+<span id="LC40" class="line" lang="plaintext">test Directory including test data and scripts.</span>
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<pre style="margin: 0;"> <span id="LC41" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC42" class="line" lang="plaintext">Citation</span>
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<pre style="margin: 0;"> <span id="LC43" class="line" lang="plaintext">--------------</span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -89,7 +49,10 @@ If you use the featureCounts program, please cite:</td>
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<pre style="margin: 0;"> <span id="LC49" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC50" class="line" lang="plaintext">Liao Y, Smyth GK and Shi W. featureCounts: an efficient general purpose program for assigning sequence reads to genomic features. Bioinformatics, 30(7):923-30, 2014</span>
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<pre style="margin: 0;"> <span id="LC51" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC52" class="line" lang="plaintext">If you use Subread and featureCounts to map and quantify RNA-seq data, please cite:</span>
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<pre style="margin: 0;">+<span id="LC53" class="line" lang="plaintext"></span>
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<pre style="margin: 0;">+<span id="LC54" class="line" lang="plaintext">Liao Y, Smyth GK and Shi W. The R package Rsubread is easier, faster, cheaper and better for alignment and quantification of RNA sequencing reads. Nucleic Acids Research, 47(8):e47, 2019</span>
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<pre style="margin: 0;">+<span id="LC55" class="line" lang="plaintext"></span>
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<pre style="margin: 0;"> <span id="LC56" class="line" lang="plaintext">Mailing lists</span>
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<pre style="margin: 0;"> <span id="LC57" class="line" lang="plaintext">--------------</span>
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<pre style="margin: 0;">-<span id="LC94" class="line" lang="plaintext">Please post your questions/suggestions to Bioconductor support site(https://support.bioconductor.org/) or Subread google group (https://groups.google.com/forum/#!forum/subread).</span>
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<pre style="margin: 0;">-<span id="LC95" class="line" lang="plaintext"></span></pre>
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<pre style="margin: 0;">+<span id="LC58" class="line" lang="plaintext">Please post your questions/suggestions to Bioconductor support site (https://support.bioconductor.org/) or Subread google group (https://groups.google.com/forum/#!forum/subread).</span></pre>
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<a href="https://salsa.debian.org/med-team/subread/-/commit/688c69997ffd190498101d6aaf3ddeb7a3a72ee2#76cc7b82fd823387133c6778766e61c15828100c"><strong>src/makefile.version</strong></a>
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<pre style="margin: 0;">-<span id="LC1" class="line" lang="make"><span class="nv" style="color: #008080;">SUBREAD_VERSION_BASE</span><span class="o" style="font-weight: 600;">=</span>2.0.<span class="idiff left right">2</span></span>
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<pre style="margin: 0;">+<span id="LC1" class="line" lang="make"><span class="nv" style="color: #008080;">SUBREAD_VERSION_BASE</span><span class="o" style="font-weight: 600;">=</span>2.0.<span class="idiff left right">3</span></span>
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<pre style="margin: 0;"> <span id="LC2" class="line" lang="make"><span class="nv" style="color: #008080;">SUBREAD_VERSION_DATE</span><span class="o" style="font-weight: 600;">=</span><span class="nv" style="color: #008080;">$(SUBREAD_VERSION_BASE)</span>-<span class="nf" style="color: #900; font-weight: 600;">$(</span><span class="nb" style="color: #0086b3;">shell</span> <span class="nb" style="color: #0086b3;">date</span> +<span class="s2" style="color: #d14;">"%d%b%Y"</span><span class="nf" style="color: #900; font-weight: 600;">)</span></span>
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<pre style="margin: 0;"> <span id="LC3" class="line" lang="make"><span class="nv" style="color: #008080;">SUBREAD_VERSION</span><span class="o" style="font-weight: 600;">=</span><span class="s2" style="color: #d14;">"</span><span class="nv" style="color: #008080;">$(SUBREAD_VERSION_DATE)</span><span class="s2" style="color: #d14;">"</span></span>
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<pre style="margin: 0;"> <span id="LC4" class="line" lang="make"><span class="nv" style="color: #008080;">SUBREAD_VERSION</span><span class="o" style="font-weight: 600;">=</span><span class="s2" style="color: #d14;">"</span><span class="nv" style="color: #008080;">$(SUBREAD_VERSION_BASE)</span><span class="s2" style="color: #d14;">"</span></span>
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<td class="line_content match " style="padding-left: 0.5em; padding-right: 0.5em; color: rgba(0,0,0,0.3);" bgcolor="#fafafa">@@ -7733,14 +7733,13 @@ void print_usage()</td>
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<pre style="margin: 0;"> <span id="LC7733" class="line" lang="c"></span>
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<pre style="margin: 0;"> <span id="LC7734" class="line" lang="c"> <span class="n" style="color: #333;">SUBREADputs</span><span class="p">(</span><span class="s" style="color: #d14;">"# Parameters specific to paired end reads"</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC7735" class="line" lang="c"> <span class="n" style="color: #333;">SUBREADputs</span><span class="p">(</span><span class="s" style="color: #d14;">""</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC7736" class="line" lang="c"> <span class="n" style="color: #333;">SUBREADputs</span><span class="p">(</span><span class="s" style="color: #d14;">" -p <span class="idiff left">If s</span>pecif<span class="idiff right">ied, libraries are assumed to</span> contain paired-end"</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC7737" class="line" lang="c"><span class="idiff left"> </span><span class="n" style="color: #333;">SUBREADputs</span><span class="p">(</span><span class="s" style="color: #d14;">" <span class="idiff">reads. For any library tha</span>t cont<span class="idiff">a</span>in<span class="idiff right">s paired-end reads</span>, the"</span><span class="p">);</span></span>
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7738
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<pre style="margin: 0;">-<span id="LC7738" class="line" lang="c"><span class="idiff left"> </span><span class="n" style="color: #333;">SUBREADputs</span><span class="p">(</span><span class="s" style="color: #d14;">" 'countReadPairs' parameter <span class="idiff right">controls if read pairs or reads</span>"</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC7739" class="line" lang="c"><span class="idiff left"> </span><span class="n" style="color: #333;">SUBREADputs</span><span class="p">(</span><span class="s" style="color: #d14;">" <span class="idiff">should be coun</span>te<span class="idiff right">d</span>."</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC7736" class="line" lang="c"> <span class="n" style="color: #333;">SUBREADputs</span><span class="p">(</span><span class="s" style="color: #d14;">" -p <span class="idiff left">S</span>pecif<span class="idiff">y that input data</span> contain paired-end<span class="idiff right"> reads. To</span>"</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC7737" class="line" lang="c"><span class="idiff left"> </span><span class="n" style="color: #333;">SUBREADputs</span><span class="p">(</span><span class="s" style="color: #d14;">" <span class="idiff">perform fragmen</span>t co<span class="idiff">u</span>ntin<span class="idiff right">g (ie. counting read pairs)</span>, the"</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC7738" class="line" lang="c"><span class="idiff left"> </span><span class="n" style="color: #333;">SUBREADputs</span><span class="p">(</span><span class="s" style="color: #d14;">" '<span class="idiff">--</span>countReadPairs' parameter <span class="idiff right">should also be specified in</span>"</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC7739" class="line" lang="c"><span class="idiff left"> </span><span class="n" style="color: #333;">SUBREADputs</span><span class="p">(</span><span class="s" style="color: #d14;">" <span class="idiff">addition to this parame</span>te<span class="idiff right">r</span>."</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC7740" class="line" lang="c"> <span class="n" style="color: #333;">SUBREADputs</span><span class="p">(</span><span class="s" style="color: #d14;">""</span><span class="p">);</span></span>
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7741
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<pre style="margin: 0;">-<span id="LC7741" class="line" lang="c"> <span class="n" style="color: #333;">SUBREADputs</span><span class="p">(</span><span class="s" style="color: #d14;">" --countReadPairs If specified, fragments (or templates) will be counted"</span><span class="p">);</span></span>
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7742
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<pre style="margin: 0;">-<span id="LC7742" class="line" lang="c"> <span class="n" style="color: #333;">SUBREADputs</span><span class="p">(</span><span class="s" style="color: #d14;">" instead of reads. This option is only applicable for"</span><span class="p">);</span></span>
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<pre style="margin: 0;">-<span id="LC7743" class="line" lang="c"> <span class="n" style="color: #333;">SUBREADputs</span><span class="p">(</span><span class="s" style="color: #d14;">" paired-end reads. For single-end data, it is ignored."</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC7741" class="line" lang="c"> <span class="n" style="color: #333;">SUBREADputs</span><span class="p">(</span><span class="s" style="color: #d14;">" --countReadPairs Count read pairs (fragments) instead of reads. This option"</span><span class="p">);</span></span>
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<pre style="margin: 0;">+<span id="LC7742" class="line" lang="c"> <span class="n" style="color: #333;">SUBREADputs</span><span class="p">(</span><span class="s" style="color: #d14;">" is only applicable for paired-end reads."</span><span class="p">);</span></span>
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<pre style="margin: 0;"> <span id="LC7743" class="line" lang="c"> <span class="n" style="color: #333;">SUBREADputs</span><span class="p">(</span><span class="s" style="color: #d14;">""</span><span class="p">);</span></span>
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7745
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<pre style="margin: 0;"> <span id="LC7744" class="line" lang="c"> <span class="n" style="color: #333;">SUBREADputs</span><span class="p">(</span><span class="s" style="color: #d14;">" -B Only count read pairs that have both ends aligned."</span><span class="p">);</span></span>
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7745
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<pre style="margin: 0;"> <span id="LC7745" class="line" lang="c"> <span class="n" style="color: #333;">SUBREADputs</span><span class="p">(</span><span class="s" style="color: #d14;">""</span><span class="p">);</span></span>
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