From c5d213a139374713634df6f10c9c6cc3fd107e56 Mon Sep 17 00:00:00 2001
From: guilhermesena1 <desenabr@usc.edu>
Date: Tue, 24 May 2022 13:58:54 -0700
Subject: [PATCH] more places where the version needs to be changed

---
 docs/MANUAL.md    | 6 +++---
 docs/abismal.1    | 6 +++---
 docs/abismal.html | 2 +-
 3 files changed, 7 insertions(+), 7 deletions(-)

diff --git a/docs/MANUAL.md b/docs/MANUAL.md
index 720723b..cbc1316 100644
--- a/docs/MANUAL.md
+++ b/docs/MANUAL.md
@@ -50,8 +50,8 @@ substantially.
 Run the following commands to install abismal
 ```
 wget https://github.com/smithlabcode/abismal/releases/download/v3.0.0/abismal-3.0.0.tar.gz
-tar -xvzf abismal-1.0.0.tar.gz
-cd abismal-1.0.0
+tar -xvzf abismal-3.0.0.tar.gz
+cd abismal-3.0.0
 ./configure --prefix=$(pwd)
 make
 make install
@@ -322,7 +322,7 @@ The last line of the headers is a copy of how the program was called
 to generate the SAM output, and is of the form
 
 ```
-@PG ID:ABISMAL  VN:1.0.0  CL:"[command-call]"
+@PG ID:ABISMAL  VN:3.0.0  CL:"[command-call]"
 ```
 
 where [command-call] is the shell command used to run abismal.
diff --git a/docs/abismal.1 b/docs/abismal.1
index dd8abc9..7f43b3c 100644
--- a/docs/abismal.1
+++ b/docs/abismal.1
@@ -58,8 +58,8 @@ Run the following commands to install abismal
 .nf
 \f[C]
 wget https://github.com/smithlabcode/abismal/releases/download/v3.0.0/abismal-3.0.0.tar.gz
-tar -xvzf abismal-1.0.0.tar.gz
-cd abismal-1.0.0
+tar -xvzf abismal-3.0.0.tar.gz
+cd abismal-3.0.0
 \&./configure --prefix=$(pwd)
 make
 make install
@@ -359,7 +359,7 @@ generate the SAM output, and is of the form
 .IP
 .nf
 \f[C]
-\[at]PG ID:ABISMAL  VN:1.0.0  CL:\[dq][command-call]\[dq]
+\[at]PG ID:ABISMAL  VN:3.0.0  CL:\[dq][command-call]\[dq]
 \f[R]
 .fi
 .PP
diff --git a/docs/abismal.html b/docs/abismal.html
index 918925d..abe9151 100644
--- a/docs/abismal.html
+++ b/docs/abismal.html
@@ -235,7 +235,7 @@ <h2 id="output-headers">Output headers</h2>
 <pre><code>@SQ SN:[chrom-name] LN:[chrom-length]</code></pre>
 <p>where [chrom-name] is given by the first word of the chromosome name in the FASTA file (anything after the first white space is deleted), and [chrom-length] is the number of bases in the chromosome sequence.</p>
 <p>The last line of the headers is a copy of how the program was called to generate the SAM output, and is of the form</p>
-<pre><code>@PG ID:ABISMAL  VN:1.0.0  CL:&quot;[command-call]&quot;</code></pre>
+<pre><code>@PG ID:ABISMAL  VN:3.0.0  CL:&quot;[command-call]&quot;</code></pre>
 <p>where [command-call] is the shell command used to run abismal.</p>
 <h2 id="output-mapped-lines">Output mapped lines</h2>
 <p>Following the header lines, reads that are mapped once (or at least once if the -a flag is used) are reported. Each read is a set of thirteen tab-separated fields as follows.</p>