Running phase: unpackPhase
unpacking source archive /nix/store/mcf4fq05bnd8l78x5nzmlpxkkb086ca5-source
source root is source
Running phase: patchPhase
Running phase: updateAutotoolsGnuConfigScriptsPhase
Running phase: configurePhase
no configure script, doing nothing
Running phase: buildPhase
build flags: -j48 SHELL=/nix/store/9ipfvwnqp1q8ijnmi5sxvlx9r8w34lw3-bash-5.3p15/bin/bash CC=c++
c++ -O3 -ffast-math qTMclust.cpp -o qTMclust 
c++ -O3 -ffast-math USalign.cpp -o USalign 
c++ -O3 -ffast-math USFlexalign.cpp -o USFlexalign 
c++ -O3 -ffast-math TMalign.cpp -o TMalign 
c++ -O3 -ffast-math TMscore.cpp -o TMscore 
c++ -O3 -ffast-math MMalign.cpp -o MMalign 
c++ -O3 -ffast-math se.cpp -o se 
c++ -O3 -ffast-math pdb2xyz.cpp -o pdb2xyz 
c++ -O3 -ffast-math xyz_sfetch.cpp -o xyz_sfetch 
c++ -O3 -ffast-math pdb2fasta.cpp -o pdb2fasta 
c++ -O3 -ffast-math biounitasym.cpp -o biounitasym 
c++ -O3 -ffast-math pdb2ss.cpp -o pdb2ss 
c++ -O3 -ffast-math NWalign.cpp -o NWalign 
c++ -O3 -ffast-math HwRMSD.cpp -o HwRMSD 
c++ -O3 -ffast-math cif2pdb.cpp -o cif2pdb 
c++ -O3 -ffast-math pdbAtomName.cpp -o pdbAtomName 
c++ -O3 -ffast-math addChainID.cpp -o addChainID 
Running phase: installPhase
Running phase: fixupPhase
shrinking RPATHs of ELF executables and libraries in /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908
shrinking /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908/bin/qTMclust
shrinking /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908/bin/USalign
shrinking /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908/bin/TMalign
shrinking /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908/bin/TMscore
shrinking /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908/bin/MMalign
shrinking /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908/bin/se
shrinking /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908/bin/pdb2xyz
shrinking /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908/bin/xyz_sfetch
shrinking /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908/bin/pdb2fasta
shrinking /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908/bin/biounitasym
shrinking /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908/bin/pdb2ss
shrinking /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908/bin/NWalign
shrinking /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908/bin/HwRMSD
shrinking /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908/bin/cif2pdb
shrinking /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908/bin/pdbAtomName
shrinking /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908/bin/addChainID
checking for references to /build/ in /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908...
patching script interpreter paths in /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908
stripping (with command strip and flags -S -p) in /nix/store/82g4cl1k9225xigisb32hqixy6gyb4y1-usalign-20260908/bin