Package hyperref conflicting with \textprime

Question

When I load hyperref, the command \textprime{} (from the package flexisym) causes the error LaTeX Error: Command \textprime unavailable in encoding TU., while working fine without hyperref. Is there a fix/workaround, or are they just completely incompatible?

Here's the .tex file:

\documentclass{report}

\usepackage{geometry}
\geometry{
a4paper,
total={170mm,257mm},
left=20mm,
top=15mm,
right=20mm,
bottom=15mm
}
\usepackage{microtype}
\usepackage{textalpha}
\usepackage[english]{babel}
\usepackage[usenames,dvipsnames]{xcolor}
\usepackage{titlesec}
  \titleformat{\chapter}
    {\huge\color{YellowGreen}}{\thechapter.}{1em}{}
  \titleformat{\section}
    {\LARGE\color{ProcessBlue}}{\thesection.}{1em}{}
  \titleformat{\subsection}
    {\large\color{WildStrawberry}}{\thesubsection.}{1em}{}
  \titleformat{\subsubsection}
    {\normalsize\color{YellowOrange}}{\thesubsubsection.}{1em}{}
\usepackage{amsmath}
\usepackage{mathspec}
  \setmainfont{SetoFontMod}[
    %Path=./fonts/setofont-mod,
    %Extension=.ttf,
    UprightFont=*,
    BoldFont=*,
    BoldFeatures={FakeBold=3},
    ItalicFont=*,
    ItalicFeatures={FakeSlant=0.3},
    BoldItalicFont=*,
    BoldItalicFeatures={FakeBold=3,FakeSlant=0.3},
  ]
  \setmathsfont(Digits,Latin,Greek,Special){SetoFont}
\usepackage{graphicx}
\usepackage{flexisym}
\usepackage{hyperref}

\title{\Huge\color{MidnightBlue}\underline{TITLE}}
\date{}

\newcommand{\highlightcolor}{magenta}
\newcommand{\highlight}[1]{{\color{\highlightcolor}#1}}
\newcommand{\myfig}[2]{\begin{figure}[h]\centering\includegraphics[scale=#2]{#1}\end{figure}}

\begin{document}

  \begin{titlepage}
    \maketitle
  \end{titlepage}
  
  \tableofcontents

  \chapter{Test}

  5\textprime{}

\end{document}

and the full error log:

Rc files read:
  NONE
Latexmk: This is Latexmk, John Collins, 17 Mar. 2022. Version 4.77, version: 4.77.
Latexmk: applying rule 'xelatex'...
Rule 'xelatex': File changes, etc:
   Changed files, or newly in use since previous run(s):
  /home/arnob99/Documents/university/bio/bio_notes/lectures/gene_expression/00_main.tex
Rule 'xelatex': The following rules & subrules became out-of-date:
  xelatex
------------
Run number 1 of rule 'xelatex'
------------
------------
Running 'xelatex -no-pdf -synctex=1 -interaction=nonstopmode -file-line-error -recorder  "/home/arnob99/Documents/university/bio/bio_notes/lectures/gene_expression/00_main.tex"'
------------
This is XeTeX, Version 3.141592653-2.6-0.999994 (TeX Live 2022/Arch Linux) (preloaded format=xelatex)
 restricted \write18 enabled.
entering extended mode
(/home/arnob99/Documents/university/bio/bio_notes/lectures/gene_expression/00_main.tex
LaTeX2e <2021-11-15> patch level 1
L3 programming layer <2022-04-10> (/usr/share/texmf-dist/tex/latex/base/report.cls
Document Class: report 2021/10/04 v1.4n Standard LaTeX document class
(/usr/share/texmf-dist/tex/latex/base/size10.clo)) (/usr/share/texmf-dist/tex/latex/geometry/geometry.sty (/usr/share/texmf-dist/tex/latex/graphics/keyval.sty) (/usr/share/texmf-dist/tex/generic/iftex/ifvtex.sty (/usr/share/texmf-dist/tex/generic/iftex/iftex.sty)))

Package geometry Warning: Over-specification in `h'-direction.
    `width' (483.69684pt) is ignored.


Package geometry Warning: Over-specification in `v'-direction.
    `height' (731.23582pt) is ignored.

(/usr/share/texmf-dist/tex/latex/microtype/microtype.sty (/usr/share/texmf-dist/tex/latex/etoolbox/etoolbox.sty) (/usr/share/texmf-dist/tex/latex/microtype/microtype-xetex.def) (/usr/share/texmf-dist/tex/latex/microtype/microtype.cfg)) (/usr/share/texmf-dist/tex/latex/greek-fontenc/textalpha.sty (/usr/share/texmf-dist/tex/latex/greek-fontenc/tuenc-greek.def (/usr/share/texmf-dist/tex/latex/greek-fontenc/greek-fontenc.def))) (/usr/share/texmf-dist/tex/generic/babel/babel.sty (/usr/share/texmf-dist/tex/generic/babel/xebabel.def (/usr/share/texmf-dist/tex/generic/babel/txtbabel.def)) (/usr/share/texmf-dist/tex/generic/babel-english/english.ldf)) (/usr/share/texmf-dist/tex/latex/xcolor/xcolor.sty (/usr/share/texmf-dist/tex/latex/graphics-cfg/color.cfg) (/usr/share/texmf-dist/tex/latex/graphics-def/xetex.def) (/usr/share/texmf-dist/tex/latex/graphics/dvipsnam.def)) (/usr/share/texmf-dist/tex/latex/titlesec/titlesec.sty) (/usr/share/texmf-dist/tex/latex/amsmath/amsmath.sty
For additional information on amsmath, use the `?' option.
(/usr/share/texmf-dist/tex/latex/amsmath/amstext.sty (/usr/share/texmf-dist/tex/latex/amsmath/amsgen.sty)) (/usr/share/texmf-dist/tex/latex/amsmath/amsbsy.sty) (/usr/share/texmf-dist/tex/latex/amsmath/amsopn.sty)) (/usr/share/texmf-dist/tex/xelatex/mathspec/mathspec.sty (/usr/share/texmf-dist/tex/generic/iftex/ifxetex.sty) (/usr/share/texmf-dist/tex/latex/fontspec/fontspec.sty (/usr/share/texmf-dist/tex/latex/l3packages/xparse/xparse.sty (/usr/share/texmf-dist/tex/latex/l3kernel/expl3.sty (/usr/share/texmf-dist/tex/latex/l3backend/l3backend-xetex.def))) (/usr/share/texmf-dist/tex/latex/fontspec/fontspec-xetex.sty (/usr/share/texmf-dist/tex/latex/base/fontenc.sty) (/usr/share/texmf-dist/tex/latex/fontspec/fontspec.cfg))) (/usr/share/texmf-dist/tex/latex/xkeyval/xkeyval.sty (/usr/share/texmf-dist/tex/generic/xkeyval/xkeyval.tex (/usr/share/texmf-dist/tex/generic/xkeyval/xkvutils.tex)))) (/usr/share/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texmf-dist/tex/latex/graphics-cfg/graphics.cfg))) (/usr/share/texmf-dist/tex/latex/breqn/flexisym.sty (/usr/share/texmf-dist/tex/latex/breqn/cmbase.sym) (/usr/share/texmf-dist/tex/latex/breqn/mathstyle.sty)) (/usr/share/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texmf-dist/tex/generic/ltxcmds/ltxcmds.sty) (/usr/share/texmf-dist/tex/generic/pdftexcmds/pdftexcmds.sty (/usr/share/texmf-dist/tex/generic/infwarerr/infwarerr.sty)) (/usr/share/texmf-dist/tex/generic/kvsetkeys/kvsetkeys.sty) (/usr/share/texmf-dist/tex/generic/kvdefinekeys/kvdefinekeys.sty) (/usr/share/texmf-dist/tex/generic/pdfescape/pdfescape.sty) (/usr/share/texmf-dist/tex/latex/hycolor/hycolor.sty) (/usr/share/texmf-dist/tex/latex/letltxmacro/letltxmacro.sty) (/usr/share/texmf-dist/tex/latex/auxhook/auxhook.sty) (/usr/share/texmf-dist/tex/latex/kvoptions/kvoptions.sty) (/usr/share/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texmf-dist/tex/generic/intcalc/intcalc.sty) (/usr/share/texmf-dist/tex/generic/etexcmds/etexcmds.sty) (/usr/share/texmf-dist/tex/latex/hyperref/puenc.def (/usr/share/texmf-dist/tex/latex/hyperref/puenc-greekbasic.def)) (/usr/share/texmf-dist/tex/latex/url/url.sty) (/usr/share/texmf-dist/tex/generic/bitset/bitset.sty (/usr/share/texmf-dist/tex/generic/bigintcalc/bigintcalc.sty)) (/usr/share/texmf-dist/tex/latex/base/atbegshi-ltx.sty)) (/usr/share/texmf-dist/tex/latex/hyperref/hxetex.def (/usr/share/texmf-dist/tex/generic/stringenc/stringenc.sty) (/usr/share/texmf-dist/tex/latex/rerunfilecheck/rerunfilecheck.sty (/usr/share/texmf-dist/tex/latex/base/atveryend-ltx.sty) (/usr/share/texmf-dist/tex/generic/uniquecounter/uniquecounter.sty))) (./00_main.aux) (/usr/share/texmf-dist/tex/latex/base/ts1cmr.fd)
*geometry* driver: auto-detecting
*geometry* detected driver: xetex
(/usr/share/texmf-dist/tex/latex/greek-fontenc/puenc-greek.def (/usr/share/texmf-dist/tex/latex/greek-fontenc/greek-fontenc.def)) (/usr/share/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texmf-dist/tex/latex/refcount/refcount.sty) (/usr/share/texmf-dist/tex/generic/gettitlestring/gettitlestring.sty))

Package hyperref Warning: Rerun to get /PageLabels entry.

(/usr/share/texmf-dist/tex/latex/microtype/mt-cmr.cfg)

LaTeX Font Warning: Font shape `TU/SetoFont(0)/m/it' undefined
(Font)              using `TU/SetoFont(0)/m/n' instead on input line 58.


LaTeX Warning: No \author given.

[1] [1]
Chapter 1.

/home/arnob99/Documents/university/bio/bio_notes/lectures/gene_expression/00_main.tex:64: LaTeX Error: Command \textprime unavailable in encoding TU.

See the LaTeX manual or LaTeX Companion for explanation.
Type  H <return>  for immediate help.
 ...                                              
                                                  
l.64   5\textprime
                  {}
[2] (./00_main.aux)

LaTeX Font Warning: Some font shapes were not available, defaults substituted.


Package rerunfilecheck Warning: File `00_main.out' has changed.
(rerunfilecheck)                Rerun to get outlines right
(rerunfilecheck)                or use package `bookmark'.

 )
(see the transcript file for additional information)
Output written on 00_main.xdv (3 pages, 2592 bytes).
SyncTeX written on 00_main.synctex.gz.
Transcript written on 00_main.log.
Latexmk: If appropriate, the -f option can be used to get latexmk
  to try to force complete processing.
Latexmk: Getting log file '00_main.log'
Latexmk: Examining '00_main.fls'
Latexmk: Examining '00_main.log'
Latexmk: References changed.
Latexmk: References changed.
Latexmk: Log file says output to '00_main.xdv'
Latexmk: Errors, so I did not complete making targets
Collected error summary (may duplicate other messages):
  xelatex: Command for 'xelatex' gave return code 1
      Refer to '00_main.log' for details

Answer 1

The definition of \textprime in package flexisym is incompatible with the definition of \textprime in package hyperref that defines it via the standard NFSS commands and uses it for the bookmarks.

A minimal example that shows the problem:

\documentclass{article}

\usepackage{flexisym}
\usepackage{hyperref}

\begin{document}
  5\textprime
\end{document}

Fixed by using the definition of flexisym for \DeclareTextCommandDefault to make it compatible with hyperref:

\documentclass{article}

\usepackage{flexisym}
\usepackage{letltxmacro}
\LetLtxMacro\FlexiSymTextPrime\textprime
\DeclareTextCommandDefault{\textprime}{\FlexiSymTextPrime}

\usepackage{hyperref}

\begin{document}

  \tableofcontents
  \section{3\textprime}
  5\textprime

\end{document}