[package - 130arm64-quarterly][biology/bowtie2] Failed for bowtie2-2.4.2_3 in build

From: <pkg-fallout_at_FreeBSD.org>
Date: Wed, 23 Jun 2021 15:25:51 UTC
You are receiving this mail as a port that you maintain
is failing to build on the FreeBSD package build server.
Please investigate the failure and submit a PR to fix
build.

Maintainer:     jwb@FreeBSD.org
Log URL:        http://ampere1.nyi.freebsd.org/data/130arm64-quarterly/dbe1c4c35016/logs/bowtie2-2.4.2_3.log
Build URL:      http://ampere1.nyi.freebsd.org/build.html?mastername=130arm64-quarterly&build=dbe1c4c35016
Log:

=>> Building biology/bowtie2
build started at Wed Jun 23 15:24:51 UTC 2021
port directory: /usr/ports/biology/bowtie2
package name: bowtie2-2.4.2_3
building for: FreeBSD 130arm64-quarterly-job-05 13.0-RELEASE-p2 FreeBSD 13.0-RELEASE-p2 arm64
maintained by: jwb@FreeBSD.org
Makefile ident: 
Poudriere version: 3.2.8-8-gaf08dbda
Host OSVERSION: 1400008
Jail OSVERSION: 1300139
Job Id: 05

---Begin Environment---
SHELL=/bin/csh
OSVERSION=1300139
UNAME_v=FreeBSD 13.0-RELEASE-p2
UNAME_r=13.0-RELEASE-p2
BLOCKSIZE=K
MAIL=/var/mail/root
MM_CHARSET=UTF-8
LANG=C.UTF-8
STATUS=1
HOME=/root
PATH=/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin
LOCALBASE=/usr/local
USER=root
LIBEXECPREFIX=/usr/local/libexec/poudriere
POUDRIERE_VERSION=3.2.8-8-gaf08dbda
MASTERMNT=/usr/local/poudriere/data/.m/130arm64-quarterly/ref
POUDRIERE_BUILD_TYPE=bulk
PACKAGE_BUILDING=yes
SAVED_TERM=
PWD=/usr/local/poudriere/data/.m/130arm64-quarterly/ref/.p/pool
P_PORTS_FEATURES=FLAVORS SELECTED_OPTIONS
MASTERNAME=130arm64-quarterly
SCRIPTPREFIX=/usr/local/share/poudriere
OLDPWD=/usr/local/poudriere/data/.m/130arm64-quarterly/ref/.p
SCRIPTPATH=/usr/local/share/poudriere/bulk.sh
POUDRIEREPATH=/usr/local/bin/poudriere
---End Environment---

---Begin Poudriere Port Flags/Env---
PORT_FLAGS=
PKGENV=
FLAVOR=
DEPENDS_ARGS=
MAKE_ARGS=
---End Poudriere Port Flags/Env---

---Begin OPTIONS List---
===> The following configuration options are available for bowtie2-2.4.2_3:
     DOCS=on: Build and/or install documentation
     EXAMPLES=on: Build and/or install examples
===> Use 'make config' to modify these settings
---End OPTIONS List---

--MAINTAINER--
jwb@FreeBSD.org
--End MAINTAINER--

--CONFIGURE_ARGS--

--End CONFIGURE_ARGS--

--CONFIGURE_ENV--
MAKE=gmake ac_cv_path_PERL=/usr/local/bin/perl ac_cv_path_PERL_PATH=/usr/local/bin/perl  PERL_USE_UNSAFE_INC=1 PYTHON="/usr/local/bin/python3.7" XDG_DATA_HOME=/wrkdirs/usr/ports/biology/bowtie2/work  XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/bowtie2/work  HOME=/wrkdirs/usr/ports/biology/bowtie2/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/bowtie2/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin SHELL=/bin/sh CONFIG_SHELL=/bin/sh CMAKE_PREFIX_PATH="/usr/local"
--End CONFIGURE_ENV--

--MAKE_ENV--
PERL_USE_UNSAFE_INC=1 XDG_DATA_HOME=/wrkdirs/usr/ports/biology/bowtie2/work  XDG_CONFIG_HOME=/wrkdirs/usr/ports/biology/bowtie2/work  HOME=/wrkdirs/usr/ports/biology/bowtie2/work TMPDIR="/tmp" PATH=/wrkdirs/usr/ports/biology/bowtie2/work/.bin:/sbin:/bin:/usr/sbin:/usr/bin:/usr/local/sbin:/usr/local/bin:/root/bin NO_PIE=yes MK_DEBUG_FILES=no MK_KERNEL_SYMBOLS=no SHELL=/bin/sh NO_LINT=YES PREFIX=/usr/local  LOCALBASE=/usr/local  CC="cc" CFLAGS="-O2 -pipe  -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing "  CPP="cpp" CPPFLAGS="-isystem /usr/local/include"  LDFLAGS=" -fstack-protector-strong -L/usr/local/lib " LIBS=""  CXX="c++" CXXFLAGS="-O2 -pipe -fstack-protector-strong -isystem /usr/local/include -fno-strict-aliasing  -isystem /usr/local/include "  MANPREFIX="/usr/local" BSD_INSTALL_PROGRAM="install  -s -m 555"  BSD_INSTALL_LIB="install  -s -m 0644"  BSD_INSTALL_SCRIPT="install  -m 555"  BSD_INSTALL_DATA="install  -m 0644"  BSD_INSTALL_MAN="install  -m 444"
--End MAKE_ENV--

--PLIST_SUB--
PORTDOCS="" PORTEXAMPLES="" PYTHON_INCLUDEDIR=include/python3.7m  PYTHON_LIBDIR=lib/python3.7  PYTHON_PLATFORM=freebsd13  PYTHON_SITELIBDIR=lib/python3.7/site-packages  PYTHON_SUFFIX=37  PYTHON_EXT_SUFFIX=  PYTHON_VER=3.7  PYTHON_VERSION=python3.7 PYTHON2="@comment " PYTHON3="" OSREL=13.0 PREFIX=%D LOCALBASE=/usr/local  RESETPREFIX=/usr/local LIB32DIR=lib PERL_VERSION=5.32.1  PERL_VER=5.32  PERL5_MAN1=lib/perl5/site_perl/man/man1  PERL5_MAN3=lib/perl5/site_perl/man/man3  SITE_PERL=lib/perl5/site_perl  SITE_ARCH=lib/perl5/site_perl/mach/5.32 DOCSDIR="share/doc/bowtie2"  EXAMPLESDIR="share/examples/bowtie2"  DATADIR="share/bowtie2"  WWWDIR="www/bowtie2"  ETCDIR="etc/bowtie2"
--End PLIST_SUB--

--SUB_LIST--
PREFIX=/usr/local LOCALBASE=/usr/local  DATADIR=/usr/local/share/bowtie2 DOCSDIR=/usr/local/share/doc/bowtie2 EXAMPLESDIR=/usr/local/share/examples/bowtie2  WWWDIR=/usr/local/www/bowtie2 ETCDIR=/usr/local/etc/bowtie2
--End SUB_LIST--

---Begin make.conf---
USE_PACKAGE_DEPENDS=yes
BATCH=yes
WRKDIRPREFIX=/wrkdirs
PORTSDIR=/usr/ports
PACKAGES=/packages
DISTDIR=/distfiles
PACKAGE_BUILDING=yes
PACKAGE_BUILDING_FLAVORS=yes
#### /usr/local/etc/poudriere.d/make.conf ####
# XXX: We really need this but cannot use it while 'make checksum' does not
# try the next mirror on checksum failure.  It currently retries the same
# failed mirror and then fails rather then trying another.  It *does*
# try the next if the size is mismatched though.
#MASTER_SITE_FREEBSD=yes
# Build ALLOW_MAKE_JOBS_PACKAGES with 2 jobs
MAKE_JOBS_NUMBER=2
#### /usr/ports/Mk/Scripts/ports_env.sh ####
_CCVERSION_921dbbb2=FreeBSD clang version 11.0.1 (git@github.com:llvm/llvm-project.git llvmorg-11.0.1-0-g43ff75f2c3fe) Target: aarch64-unknown-freebsd13.0 Thread model: posix InstalledDir: /usr/bin
_ALTCCVERSION_921dbbb2=none
_CXXINTERNAL_acaad9ca=FreeBSD clang version 11.0.1 (git@github.com:llvm/llvm-project.git llvmorg-11.0.1-0-g43ff75f2c3fe) Target: aarch64-unknown-freebsd13.0 Thread model: posix InstalledDir: /usr/bin "/usr/bin/ld" "--eh-frame-hdr" "-dynamic-linker" "/libexec/ld-elf.so.1" "--enable-new-dtags" "-o" "a.out" "/usr/lib/crt1.o" "/usr/lib/crti.o" "/usr/lib/crtbegin.o" "-L/usr/lib" "/dev/null" "-lc++" "-lm" "-lgcc" "--as-needed" "-lgcc_s" "--no-as-needed" "-lc" "-lgcc" "--as-needed" "-lgcc_s" "--no-as-needed" "/usr/lib/crtend.o" "/usr/lib/crtn.o"
CC_OUTPUT_921dbbb2_58173849=yes
CC_OUTPUT_921dbbb2_9bdba57c=yes
CC_OUTPUT_921dbbb2_6a4fe7f5=yes
CC_OUTPUT_921dbbb2_6bcac02b=yes
CC_OUTPUT_921dbbb2_67d20829=yes
CC_OUTPUT_921dbbb2_bfa62e83=yes
CC_OUTPUT_921dbbb2_f0b4d593=yes
CC_OUTPUT_921dbbb2_308abb44=yes
CC_OUTPUT_921dbbb2_f00456e5=yes
CC_OUTPUT_921dbbb2_65ad290d=yes
CC_OUTPUT_921dbbb2_f2776b26=yes
CC_OUTPUT_921dbbb2_b2657cc3=yes
CC_OUTPUT_921dbbb2_380987f7=yes
CC_OUTPUT_921dbbb2_160933ec=yes
CC_OUTPUT_921dbbb2_fb62803b=yes
_OBJC_CCVERSION_921dbbb2=FreeBSD clang version 11.0.1 (git@github.com:llvm/llvm-project.git llvmorg-11.0.1-0-g43ff75f2c3fe) Target: aarch64-unknown-freebsd13.0 Thread model: posix InstalledDir: /usr/bin
_OBJC_ALTCCVERSION_921dbbb2=none
ARCH=aarch64
OPSYS=FreeBSD
_OSRELEASE=13.0-RELEASE-p2
OSREL=13.0
OSVERSION=1300139
PYTHONBASE=/usr/local
CONFIGURE_MAX_CMD_LEN=524288
HAVE_PORTS_ENV=1
#### Misc Poudriere ####
GID=0
UID=0
---End make.conf---
--Resource limits--
cpu time               (seconds, -t)  unlimited
file size           (512-blocks, -f)  unlimited
data seg size           (kbytes, -d)  1048576
stack size              (kbytes, -s)  1048576
core file size      (512-blocks, -c)  unlimited
max memory size         (kbytes, -m)  unlimited
locked memory           (kbytes, -l)  unlimited
max user processes              (-u)  89999
open files                      (-n)  1024
virtual mem size        (kbytes, -v)  unlimited
swap limit              (kbytes, -w)  unlimited
socket buffer size       (bytes, -b)  unlimited
pseudo-terminals                (-p)  unlimited
kqueues                         (-k)  unlimited
umtx shared locks               (-o)  unlimited
--End resource limits--
=======================<phase: check-sanity   >============================
===>  License GPLv3+ accepted by the user
===========================================================================
=======================<phase: pkg-depends    >============================
===>   bowtie2-2.4.2_3 depends on file: /usr/local/sbin/pkg - not found
===>   Installing existing package /packages/All/pkg-1.16.3.txz
[130arm64-quarterly-job-05] Installing pkg-1.16.3...
[130arm64-quarterly-job-05] Extracting pkg-1.16.3: .......... done
===>   bowtie2-2.4.2_3 depends on file: /usr/local/sbin/pkg - found
===>   Returning to build of bowtie2-2.4.2_3
===========================================================================
=======================<phase: fetch-depends  >============================
===========================================================================
=======================<phase: fetch          >============================
===>  License GPLv3+ accepted by the user
===> Fetching all distfiles required by bowtie2-2.4.2_3 for building
===========================================================================
=======================<phase: checksum       >============================
===>  License GPLv3+ accepted by the user
===> Fetching all distfiles required by bowtie2-2.4.2_3 for building
=> SHA256 Checksum OK for BenLangmead-bowtie2-v2.4.2_GH0.tar.gz.
===========================================================================
=======================<phase: extract-depends>============================
===========================================================================
=======================<phase: extract        >============================
===>  License GPLv3+ accepted by the user
===> Fetching all distfiles required by bowtie2-2.4.2_3 for building
===>  Extracting for bowtie2-2.4.2_3
=> SHA256 Checksum OK for BenLangmead-bowtie2-v2.4.2_GH0.tar.gz.
===========================================================================
=======================<phase: patch-depends  >============================
===========================================================================
=======================<phase: patch          >============================
===>  Patching for bowtie2-2.4.2_3
===>  Applying FreeBSD patches for bowtie2-2.4.2_3 from /usr/ports/biology/bowtie2/files
===========================================================================
=======================<phase: build-depends  >============================
===>   bowtie2-2.4.2_3 depends on package: gmake>=4.3 - not found
===>   Installing existing package /packages/All/gmake-4.3_2.txz
[130arm64-quarterly-job-05] Installing gmake-4.3_2...
[130arm64-quarterly-job-05] `-- Installing gettext-runtime-0.21...
[130arm64-quarterly-job-05] |   `-- Installing indexinfo-0.3.1...
[130arm64-quarterly-job-05] |   `-- Extracting indexinfo-0.3.1: .... done
[130arm64-quarterly-job-05] `-- Extracting gettext-runtime-0.21: .......... done
[130arm64-quarterly-job-05] Extracting gmake-4.3_2: .......... done
===>   bowtie2-2.4.2_3 depends on package: gmake>=4.3 - found
===>   Returning to build of bowtie2-2.4.2_3
===>   bowtie2-2.4.2_3 depends on file: /usr/local/bin/python3.7 - not found
===>   Installing existing package /packages/All/python37-3.7.10.txz
[130arm64-quarterly-job-05] Installing python37-3.7.10...
[130arm64-quarterly-job-05] `-- Installing libffi-3.3_1...
[130arm64-quarterly-job-05] `-- Extracting libffi-3.3_1: .......... done
<snip>
           : "=&r" (__eax), "=&r" (__ebx)
                    ^
third_party/cpuid.h:133:15: note: use constraint modifier "w"
           "push{l}\t%0\n\t"
                     ^~
                     %w0
third_party/cpuid.h:138:14: warning: value size does not match register size specified by the constraint and modifier [-Wasm-operand-widths]
           : "=&r" (__eax), "=&r" (__ebx)
                    ^
third_party/cpuid.h:136:14: note: use constraint modifier "w"
           "pop{l}\t%0\n\t"
                    ^~
                    %w0
third_party/cpuid.h:162:3: error: invalid output constraint '=a' in asm
  __cpuid (__ext, __eax, __ebx, __ecx, __edx);
  ^
third_party/cpuid.h:104:7: note: expanded from macro '__cpuid'
           : "=a" (a), "=b" (b), "=c" (c), "=d" (d)     \
             ^
third_party/cpuid.h:185:3: error: invalid output constraint '=a' in asm
  __cpuid (__level, *__eax, *__ebx, *__ecx, *__edx);
  ^
third_party/cpuid.h:104:7: note: expanded from macro '__cpuid'
           : "=a" (a), "=b" (b), "=c" (c), "=d" (d)     \
             ^
./processor_support.h:50:9: note: called by 'POPCNTenabled'
        __get_cpuid(0x1, &regs.EAX, &regs.EBX, &regs.ECX, &regs.EDX);
        ^
18 warnings and 4 errors generated.
In file included from bt2_util.cpp:26:
In file included from ./bt2_idx.h:59:
In file included from ./processor_support.h:17:
third_party/cpuid.h:138:14: warning: value size does not match register size specified by the constraint and modifier [-Wasm-operand-widths]
           : "=&r" (__eax), "=&r" (__ebx)
                    ^
third_party/cpuid.h:130:14: note: use constraint modifier "w"
           "pop{l}\t%0\n\t"
                    ^~
                    %w0
third_party/cpuid.h:138:14: warning: value size does not match register size specified by the constraint and modifier [-Wasm-operand-widths]
           : "=&r" (__eax), "=&r" (__ebx)
                    ^
third_party/cpuid.h:131:15: note: use constraint modifier "w"
           "mov{l}\t{%0, %1|%1, %0}\n\t"
                     ^~
                     %w0
third_party/cpuid.h:138:29: warning: value size does not match register size specified by the constraint and modifier [-Wasm-operand-widths]
           : "=&r" (__eax), "=&r" (__ebx)
                                   ^
third_party/cpuid.h:131:19: note: use constraint modifier "w"
           "mov{l}\t{%0, %1|%1, %0}\n\t"
                         ^~
                         %w1
third_party/cpuid.h:138:29: warning: value size does not match register size specified by the constraint and modifier [-Wasm-operand-widths]
           : "=&r" (__eax), "=&r" (__ebx)
                                   ^
third_party/cpuid.h:131:22: note: use constraint modifier "w"
           "mov{l}\t{%0, %1|%1, %0}\n\t"
                            ^~
                            %w1
third_party/cpuid.h:138:14: warning: value size does not match register size specified by the constraint and modifier [-Wasm-operand-widths]
           : "=&r" (__eax), "=&r" (__ebx)
                    ^
third_party/cpuid.h:131:26: note: use constraint modifier "w"
           "mov{l}\t{%0, %1|%1, %0}\n\t"
                                ^~
                                %w0
third_party/cpuid.h:138:14: warning: value size does not match register size specified by the constraint and modifier [-Wasm-operand-widths]
           : "=&r" (__eax), "=&r" (__ebx)
                    ^
third_party/cpuid.h:132:19: note: use constraint modifier "w"
           "xor{l}\t{%2, %0|%0, %2}\n\t"
                         ^~
                         %w0
third_party/cpuid.h:138:14: warning: value size does not match register size specified by the constraint and modifier [-Wasm-operand-widths]
           : "=&r" (__eax), "=&r" (__ebx)
                    ^
third_party/cpuid.h:132:22: note: use constraint modifier "w"
           "xor{l}\t{%2, %0|%0, %2}\n\t"
                            ^~
                            %w0
third_party/cpuid.h:138:14: warning: value size does not match register size specified by the constraint and modifier [-Wasm-operand-widths]
           : "=&r" (__eax), "=&r" (__ebx)
                    ^
third_party/cpuid.h:133:15: note: use constraint modifier "w"
           "push{l}\t%0\n\t"
                     ^~
                     %w0
third_party/cpuid.h:138:14: warning: value size does not match register size specified by the constraint and modifier [-Wasm-operand-widths]
           : "=&r" (__eax), "=&r" (__ebx)
                    ^
third_party/cpuid.h:136:14: note: use constraint modifier "w"
           "pop{l}\t%0\n\t"
                    ^~
                    %w0
third_party/cpuid.h:162:3: error: invalid output constraint '=a' in asm
  __cpuid (__ext, __eax, __ebx, __ecx, __edx);
  ^
third_party/cpuid.h:104:7: note: expanded from macro '__cpuid'
           : "=a" (a), "=b" (b), "=c" (c), "=d" (d)     \
             ^
third_party/cpuid.h:185:3: error: invalid output constraint '=a' in asm
  __cpuid (__level, *__eax, *__ebx, *__ecx, *__edx);
  ^
third_party/cpuid.h:104:7: note: expanded from macro '__cpuid'
           : "=a" (a), "=b" (b), "=c" (c), "=d" (d)     \
             ^
third_party/cpuid.h:138:14: warning: value size does not match register size specified by the constraint and modifier [-Wasm-operand-widths]
           : "=&r" (__eax), "=&r" (__ebx)
                    ^
third_party/cpuid.h:182:7: note: called by '__get_cpuid'
  if (__get_cpuid_max (__ext, 0) < __level)
      ^
third_party/cpuid.h:130:14: note: use constraint modifier "w"
           "pop{l}\t%0\n\t"
                    ^~
                    %w0
third_party/cpuid.h:138:14: warning: value size does not match register size specified by the constraint and modifier [-Wasm-operand-widths]
           : "=&r" (__eax), "=&r" (__ebx)
                    ^
third_party/cpuid.h:131:15: note: use constraint modifier "w"
           "mov{l}\t{%0, %1|%1, %0}\n\t"
                     ^~
                     %w0
third_party/cpuid.h:138:29: warning: value size does not match register size specified by the constraint and modifier [-Wasm-operand-widths]
           : "=&r" (__eax), "=&r" (__ebx)
                                   ^
third_party/cpuid.h:131:19: note: use constraint modifier "w"
           "mov{l}\t{%0, %1|%1, %0}\n\t"
                         ^~
                         %w1
third_party/cpuid.h:138:29: warning: value size does not match register size specified by the constraint and modifier [-Wasm-operand-widths]
           : "=&r" (__eax), "=&r" (__ebx)
                                   ^
third_party/cpuid.h:131:22: note: use constraint modifier "w"
           "mov{l}\t{%0, %1|%1, %0}\n\t"
                            ^~
                            %w1
third_party/cpuid.h:138:14: warning: value size does not match register size specified by the constraint and modifier [-Wasm-operand-widths]
           : "=&r" (__eax), "=&r" (__ebx)
                    ^
third_party/cpuid.h:131:26: note: use constraint modifier "w"
           "mov{l}\t{%0, %1|%1, %0}\n\t"
                                ^~
                                %w0
third_party/cpuid.h:138:14: warning: value size does not match register size specified by the constraint and modifier [-Wasm-operand-widths]
           : "=&r" (__eax), "=&r" (__ebx)
                    ^
third_party/cpuid.h:132:19: note: use constraint modifier "w"
           "xor{l}\t{%2, %0|%0, %2}\n\t"
                         ^~
                         %w0
third_party/cpuid.h:138:14: warning: value size does not match register size specified by the constraint and modifier [-Wasm-operand-widths]
           : "=&r" (__eax), "=&r" (__ebx)
                    ^
third_party/cpuid.h:132:22: note: use constraint modifier "w"
           "xor{l}\t{%2, %0|%0, %2}\n\t"
                            ^~
                            %w0
third_party/cpuid.h:138:14: warning: value size does not match register size specified by the constraint and modifier [-Wasm-operand-widths]
           : "=&r" (__eax), "=&r" (__ebx)
                    ^
third_party/cpuid.h:133:15: note: use constraint modifier "w"
           "push{l}\t%0\n\t"
                     ^~
                     %w0
third_party/cpuid.h:138:14: warning: value size does not match register size specified by the constraint and modifier [-Wasm-operand-widths]
           : "=&r" (__eax), "=&r" (__ebx)
                    ^
third_party/cpuid.h:136:14: note: use constraint modifier "w"
           "pop{l}\t%0\n\t"
                    ^~
                    %w0
third_party/cpuid.h:162:3: error: invalid output constraint '=a' in asm
  __cpuid (__ext, __eax, __ebx, __ecx, __edx);
  ^
third_party/cpuid.h:104:7: note: expanded from macro '__cpuid'
           : "=a" (a), "=b" (b), "=c" (c), "=d" (d)     \
             ^
third_party/cpuid.h:185:3: error: invalid output constraint '=a' in asm
  __cpuid (__level, *__eax, *__ebx, *__ecx, *__edx);
  ^
third_party/cpuid.h:104:7: note: expanded from macro '__cpuid'
           : "=a" (a), "=b" (b), "=c" (c), "=d" (d)     \
             ^
./processor_support.h:50:9: note: called by 'POPCNTenabled'
        __get_cpuid(0x1, &regs.EAX, &regs.EBX, &regs.ECX, &regs.EDX);
        ^
18 warnings and 4 errors generated.
gmake[1]: *** [Makefile:346: bowtie2-build-s] Error 1
gmake[1]: *** Waiting for unfinished jobs....
gmake[1]: *** [Makefile:354: bowtie2-build-l] Error 1
gmake[1]: Leaving directory '/wrkdirs/usr/ports/biology/bowtie2/work/bowtie2-2.4.2'
===> Compilation failed unexpectedly.
Try to set MAKE_JOBS_UNSAFE=yes and rebuild before reporting the failure to
the maintainer.
*** Error code 1

Stop.
make: stopped in /usr/ports/biology/bowtie2