anaconda.bash is misleading. It's not only for anaconda, but for all conda

pyenv.d/rehash/conda.bash

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+# Anaconda comes with binaries of system packages (e.g. `openssl`, `curl`).
+# Creating shims for those binaries will prevent pyenv users to run those
+# commands normally when not using Anaconda.
+#
+# This hooks is intended to skip creating shims for those executables.
+
+conda_exists() {
+  shopt -s nullglob
+  local condas=($(echo "${PYENV_ROOT}/versions/"*"/bin/conda" "${PYENV_ROOT}/versions/"*"/envs/"*"/bin/conda"))
+  shopt -u nullglob
+  [ -n "${condas}" ]
+}
+
+conda_shim() {
+  case "${1##*/}" in
+  "curl" | "curl-config" )
+    return 0 # curl
+    ;;
+  "fc-cache" | "fc-cat" | "fc-list" | "fc-match" | "fc-pattern" | "fc-query" | "fc-scan" | "fc-validate" )
+    return 0 # fontconfig
+    ;;
+  "freetype-config" )
+    return 0 # freetype
+    ;;
+  "libpng-config" )
+    return 0 # libpng
+    ;;
+  "openssl" )
+    return 0 # openssl
+    ;;
+  "assistant" | "designer" | "lconvert" | "linguist" | "lrelease" | "lupdate" | "moc" | "pixeltool" | "qcollectiongenerator" | "qdbus" | "qdbuscpp2xml" | "qdbusviewer" | "qdbusxml2cpp" | "qhelpconverter" | "qhelpgenerator" | "qmake" | "qmlplugindump" | "qmlviewer" | "qtconfig" | "rcc" | "uic" | "xmlpatterns" | "xmlpatternsvalidator" )
+    return 0 # qtchooser
+    ;;
+  "redis-benchmark" | "redis-check-aof" | "redis-check-dump" | "redis-cli" | "redis-server" )
+    return 0 # redis
+    ;;
+  "sqlite3" )
+    return 0 # sqlite3
+    ;;
+  "xml2-config" )
+    return 0 # libxml2
+    ;;
+  "xslt-config" )
+    return 0 # libxslt
+    ;;
+  "xsltproc" )
+    return 0 # xsltproc
+    ;;
+  "unxz" | "xz" | "xzcat" | "xzcmd" | "xzdiff" | "xzegrep" | "xzfgrep" | "xzgrep" | "xzless" | "xzmore" )
+    return 0 # xz-utils
+    ;;
+  esac
+  return 1
+}
+
+# override `make_shims` to avoid conflict between pyenv-virtualenv's `envs.bash`
+# https://github.com/yyuu/pyenv-virtualenv/blob/v20160716/etc/pyenv.d/rehash/envs.bash
+make_shims() {
+  local file shim
+  for file do
+    shim="${file##*/}"
+    if ! conda_shim "${shim}" 1>&2; then
+      register_shim "$shim"
+    fi
+  done
+}
+
+deregister_conda_shims() {
+  local shim
+  local shims=()
+  for shim in ${registered_shims}; do
+    if ! conda_shim "${shim}" 1>&2; then
+      shims[${#shims[*]}]="${shim}"
+    fi
+  done
+  registered_shims=" ${shims[@]} "
+}
+
+if conda_exists; then
+  deregister_conda_shims
+fi