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

diff --git src/htslib/cram/mFILE.h src/htslib/cram/mFILE.h
deleted file mode 100644
index 05a3a88d22b..00000000000
--- src/htslib/cram/mFILE.h
+++ /dev/null
@@ -1,89 +0,0 @@
-/*
-Copyright (c) 2005-2006, 2008-2009 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.
-*/
-
-#ifndef _MFILE_H_
-#define _MFILE_H_
-
-#include <stdio.h>
-
-#ifdef __cplusplus
-extern "C" {
-#endif
-
-typedef struct {
-    FILE *fp;
-    char *data;
-    size_t alloced;
-    int eof;
-    int mode; /* open mode in MF_?? define bit pattern */
-    size_t size;
-    size_t offset;
-    size_t flush_pos;
-} mFILE;
-
-#define MF_READ    1
-#define MF_WRITE   2
-#define MF_APPEND  4
-#define MF_BINARY  8
-#define MF_TRUNC  16
-#define MF_MODEX  32
-#define MF_MMAP   64
-
-mFILE *mfreopen(const char *path, const char *mode, FILE *fp);
-mFILE *mfopen(const char *path, const char *mode);
-int mfdetach(mFILE *mf);
-int mfclose(mFILE *mf);
-int mfdestroy(mFILE *mf);
-int mfseek(mFILE *mf, long offset, int whence);
-long mftell(mFILE *mf);
-void mrewind(mFILE *mf);
-void mftruncate(mFILE *mf, long offset);
-int mfeof(mFILE *mf);
-size_t mfread(void *ptr, size_t size, size_t nmemb, mFILE *mf);
-size_t mfwrite(void *ptr, size_t size, size_t nmemb, mFILE *mf);
-int mfgetc(mFILE *mf);
-int mungetc(int c, mFILE *mf);
-mFILE *mfcreate(char *data, int size);
-mFILE *mfcreate_from(const char *path, const char *mode_str, FILE *fp);
-void mfrecreate(mFILE *mf, char *data, int size);
-void *mfsteal(mFILE *mf, size_t *size_out);
-char *mfgets(char *s, int size, mFILE *mf);
-int mfflush(mFILE *mf);
-int mfprintf(mFILE *mf, char *fmt, ...);
-mFILE *mstdin(void);
-mFILE *mstdout(void);
-mFILE *mstderr(void);
-void mfascii(mFILE *mf);
-
-#ifdef __cplusplus
-}
-#endif
-
-#endif /* _MFILE_H_ */