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

diff --git src/htslib/hfile_net.c src/htslib/hfile_net.c
deleted file mode 100644
index ded19fce300..00000000000
--- src/htslib/hfile_net.c
+++ /dev/null
@@ -1,114 +0,0 @@
-/*  hfile_net.c -- network backend for low-level input/output streams.
-
-    Copyright (C) 2013-2015 Genome Research Ltd.
-
-    Author: John Marshall <jm18@sanger.ac.uk>
-
-Permission is hereby granted, free of charge, to any person obtaining a copy
-of this software and associated documentation files (the "Software"), to deal
-in the Software without restriction, including without limitation the rights
-to use, copy, modify, merge, publish, distribute, sublicense, and/or sell
-copies of the Software, and to permit persons to whom the Software is
-furnished to do so, subject to the following conditions:
-
-The above copyright notice and this permission notice shall be included in
-all copies or substantial portions of the Software.
-
-THE SOFTWARE IS PROVIDED "AS IS", WITHOUT WARRANTY OF ANY KIND, EXPRESS OR
-IMPLIED, INCLUDING BUT NOT LIMITED TO THE WARRANTIES OF MERCHANTABILITY,
-FITNESS FOR A PARTICULAR PURPOSE AND NONINFRINGEMENT. IN NO EVENT SHALL
-THE AUTHORS OR COPYRIGHT HOLDERS BE LIABLE FOR ANY CLAIM, DAMAGES OR OTHER
-LIABILITY, WHETHER IN AN ACTION OF CONTRACT, TORT OR OTHERWISE, ARISING
-FROM, OUT OF OR IN CONNECTION WITH THE SOFTWARE OR THE USE OR OTHER
-DEALINGS IN THE SOFTWARE.  */
-
-#include <config.h>
-
-#include <stdlib.h>
-#include <errno.h>
-
-#include "hfile_internal.h"
-
-#include "htslib/knetfile.h"
-
-typedef struct {
-    hFILE base;
-    knetFile *netfp;
-} hFILE_net;
-
-static int net_inited = 0;
-
-#ifdef _WIN32
-static void net_exit(void)
-{
-    knet_win32_destroy();
-}
-#endif
-
-static int net_init(void)
-{
-#ifdef _WIN32
-    if (knet_win32_init() != 0) return -1;
-
-    // In the unlikely event atexit() fails, it's better to succeed here and
-    // carry on and do the I/O; then eventually when the program exits, we'll
-    // merely have failed to clean up properly, as if we had aborted.
-    (void) atexit(net_exit);
-#endif
-
-    net_inited = 1;
-    return 0;
-}
-
-static ssize_t net_read(hFILE *fpv, void *buffer, size_t nbytes)
-{
-    hFILE_net *fp = (hFILE_net *) fpv;
-    return knet_read(fp->netfp, buffer, nbytes);
-}
-
-static off_t net_seek(hFILE *fpv, off_t offset, int whence)
-{
-    hFILE_net *fp = (hFILE_net *) fpv;
-    return knet_seek(fp->netfp, offset, whence);
-}
-
-static int net_close(hFILE *fpv)
-{
-    hFILE_net *fp = (hFILE_net *) fpv;
-    return knet_close(fp->netfp);
-}
-
-static const struct hFILE_backend net_backend =
-{
-    net_read, NULL, net_seek, NULL, net_close
-};
-
-hFILE *hopen_net(const char *filename, const char *mode)
-{
-    hFILE_net *fp;
-
-    // Do any networking initialisation if this is the first use.
-    if (! net_inited) { if (net_init() < 0) return NULL; }
-
-    fp = (hFILE_net *) hfile_init(sizeof (hFILE_net), mode, 0);
-    if (fp == NULL) return NULL;
-
-    fp->netfp = knet_open(filename, mode);
-    if (fp->netfp == NULL) { hfile_destroy((hFILE *) fp); return NULL; }
-
-    fp->base.backend = &net_backend;
-    return &fp->base;
-}
-
-int hfile_plugin_init_net(struct hFILE_plugin *self)
-{
-    static const struct hFILE_scheme_handler handler =
-        { hopen_net, hfile_always_remote, "knetfile", 0 };
-
-    self->name = "knetfile";
-    hfile_add_scheme_handler("https", &handler);
-    hfile_add_scheme_handler("http", &handler);
-    hfile_add_scheme_handler("ftp",  &handler);
-    hfile_add_scheme_handler("drs",  &handler);
-    return 0;
-}