7df6e18265341f87a69fba808aa1f92f8ebca841
markd
  Wed Apr 15 13:39:42 2026 -0700
move copy of htslib

diff --git src/htslib/cram/cram.h src/htslib/cram/cram.h
deleted file mode 100644
index c4e88090979..00000000000
--- src/htslib/cram/cram.h
+++ /dev/null
@@ -1,61 +0,0 @@
-/*
-Copyright (c) 2012-2013 Genome Research Ltd.
-Author: James Bonfield <jkb@sanger.ac.uk>
-
-Redistribution and use in source and binary forms, with or without 
-modification, are permitted provided that the following conditions are met:
-
-   1. Redistributions of source code must retain the above copyright notice, 
-this list of conditions and the following disclaimer.
-
-   2. Redistributions in binary form must reproduce the above copyright notice, 
-this list of conditions and the following disclaimer in the documentation 
-and/or other materials provided with the distribution.
-
-   3. Neither the names Genome Research Ltd and Wellcome Trust Sanger
-Institute nor the names of its contributors may be used to endorse or promote
-products derived from this software without specific prior written permission.
-
-THIS SOFTWARE IS PROVIDED BY GENOME RESEARCH LTD AND CONTRIBUTORS "AS IS" AND 
-ANY EXPRESS OR IMPLIED WARRANTIES, INCLUDING, BUT NOT LIMITED TO, THE IMPLIED 
-WARRANTIES OF MERCHANTABILITY AND FITNESS FOR A PARTICULAR PURPOSE ARE 
-DISCLAIMED. IN NO EVENT SHALL GENOME RESEARCH LTD OR CONTRIBUTORS BE LIABLE
-FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL
-DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR
-SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER
-CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY,
-OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE
-OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
-*/
-
-/*! \file
- * CRAM interface.
- *
- * Consider using the higher level hts_*() API for programs that wish to
- * be file format agnostic (see htslib/hts.h).
- *
- * This API should be used for CRAM specific code. The specifics of the
- * public API are implemented in cram_io.h, cram_encode.h and cram_decode.h
- * although these should not be included directly (use this file instead).
- */
-
-#ifndef _CRAM_H_
-#define _CRAM_H_
-
-#include "cram/cram_samtools.h"
-#include "cram/sam_header.h"
-#include "cram_structs.h"
-#include "cram_io.h"
-#include "cram_encode.h"
-#include "cram_decode.h"
-#include "cram_stats.h"
-#include "cram_codecs.h"
-#include "cram_index.h"
-
-// Validate against the external cram.h,
-//
-// This contains duplicated portions from cram_io.h and cram_structs.h,
-// so we want to ensure that the prototypes match.
-#include "htslib/cram.h"
-
-#endif