LLM4Binary/decompile-bench-makefile huggingface dataset:
// File: /workspace/github_c_makefile_star2_O3/debbiemarkslab[P]plmc/src/weights.c
// Function: WriteWeightsFile
void WriteWeightsFile(char *weightsFile, alignment_t *ali) {
    // Note: Ignoring options->scale and options->theta here, writing out raw weights
    /* Write weights to file */
    FILE *fpOutput = fopen(weightsFile, "w");
    if (fpOutput == NULL) {
        fprintf(stderr, "Error: could not open weights file %s\n", weightsFile);
        exit(1);
    }
    // Write out weights, one float per line, and include invalid seqs as weight 0
    // Copied from plm.OutputParametersFull()
    int skipix = 0, reducedix = 0;
    for (int i = 0; i < (ali->nSeqs + ali->nSkippedSeqs); i++) {
        if (skipix < ali->nSkippedSeqs && i == ali->skippedSeqs[skipix]) {
            /* Skip skipped sequences */
            fprintf(fpOutput, "0.0\n");
            skipix++;
        } else {
            numeric_t w = ali->weights[reducedix];
            fprintf(fpOutput, weights_fmt, w);
            reducedix++;
        }
    }
    fclose(fpOutput);
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
pushq %rax
movq %rsi, %rbx
movq %rdi, %r15
leaq 0x11a5(%rip), %rsi      # 0xd430
callq 0x11d0
testq %rax, %rax
je 0xc324
movq %rax, %r14
movl 0x28(%rbx), %eax
movl (%rbx), %ecx
addl %eax, %ecx
jle 0xc30e
xorl %ebp, %ebp
leaq 0x18a3(%rip), %r15      # 0xdb51
xorl %r12d, %r12d
xorl %r13d, %r13d
cmpl %eax, %ebp
jge 0xc2de
movq 0x30(%rbx), %rax
movslq %ebp, %rcx
cmpl (%rax,%rcx,4), %r12d
jne 0xc2de
movl $0x4, %esi
movl $0x1, %edx
movq %r15, %rdi
movq %r14, %rcx
callq 0x1210
incl %ebp
jmp 0xc2ff
movq 0x50(%rbx), %rax
movslq %r13d, %r13
movsd (%rax,%r13,8), %xmm0
movq 0x4e6e(%rip), %rsi      # 0x11160
movq %r14, %rdi
movb $0x1, %al
callq 0x1180
incl %r13d
incl %r12d
movl 0x28(%rbx), %eax
movl (%rbx), %ecx
addl %eax, %ecx
cmpl %ecx, %r12d
jl 0xc2b4
movq %r14, %rdi
addq $0x8, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
jmp 0x10b0
movq %r15, %rdi
callq 0x232d
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/fastqreader.cpp
// Function: FastqReader::FastqReader(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>>, bool, bool)
FastqReader::FastqReader(string filename, bool hasQuality, bool phred64){
	mFilename = filename;
	mZipFile = NULL;
	mZipped = false;
	mFile = NULL;
	mStdinMode = false;
	mPhred64 = phred64;
	mHasQuality = hasQuality;
	mBuf = new char[FQ_BUF_SIZE];
	mBufDataLen = 0;
	mBufUsedLen = 0;
	init();
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %rbx
pushq %rax
movl %ecx, %r14d
movl %edx, %ebp
movq %rdi, %rbx
leaq 0x10(%rdi), %r15
movq %r15, (%rdi)
movq $0x0, 0x8(%rdi)
movb $0x0, 0x10(%rdi)
callq 0x3190
xorl %eax, %eax
movb %al, 0x48(%rbx)
xorps %xmm0, %xmm0
movups %xmm0, 0x20(%rbx)
movb %al, 0x30(%rbx)
movb %r14b, 0x32(%rbx)
movb %bpl, 0x31(%rbx)
movl $0x100000, %edi         # imm = 0x100000
callq 0x3040
movq %rax, 0x38(%rbx)
movq $0x0, 0x40(%rbx)
movq %rbx, %rdi
callq 0x3882
addq $0x8, %rsp
popq %rbx
popq %r14
popq %r15
popq %rbp
retq
movq %rax, %r14
movq (%rbx), %rdi
cmpq %r15, %rdi
je 0x3879
movq (%r15), %rsi
incq %rsi
callq 0x32d0
movq %r14, %rdi
callq 0x3500
nop
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/fastqreader.cpp
// Function: FastqReader::init()
void FastqReader::init(){
	if (ends_with(mFilename, ".gz")){
		mZipFile = gzopen(mFilename.c_str(), "r");
		mZipped = true;
		gzrewind(mZipFile);
	}
	else {
		if(mFilename == "/dev/stdin") {
			mFile = stdin;
		}
		else
			mFile = fopen(mFilename.c_str(), "rb");
		if(mFile == NULL) {
			error_exit("Failed to open file: " + mFilename);
		}
		mZipped = false;
	}
	readToBuf();
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %rbx
subq $0x28, %rsp
movq %rdi, %rbx
leaq 0x18(%rsp), %r15
movq %r15, -0x10(%r15)
leaq 0x97ba(%rip), %rsi      # 0xd059
leaq 0x97b6(%rip), %rdx      # 0xd05c
leaq 0x8(%rsp), %r14
movq %r14, %rdi
callq 0x4ce4
movq (%r14), %rdi
movq 0x8(%r14), %rax
movq 0x8(%rbx), %rcx
cmpq %rcx, %rax
jbe 0x38c7
xorl %ebp, %ebp
jmp 0x38fc
testq %rax, %rax
je 0x38f9
leaq (%rdi,%rax), %rdx
addq (%rbx), %rcx
negq %rax
movq $-0x1, %rsi
movb (%rdx,%rsi), %r8b
cmpb (%rcx,%rsi), %r8b
sete %bpl
jne 0x38fc
leaq -0x1(%rsi), %r8
cmpq %rsi, %rax
movq %r8, %rsi
jne 0x38dd
jmp 0x38fc
movb $0x1, %bpl
cmpq %r15, %rdi
je 0x390e
movq 0x18(%rsp), %rsi
incq %rsi
callq 0x32d0
testb %bpl, %bpl
je 0x3934
movq (%rbx), %rdi
leaq 0x96ff(%rip), %rsi      # 0xd01c
callq 0x33f0
movq %rax, 0x20(%rbx)
movb $0x1, 0x30(%rbx)
movq %rax, %rdi
callq 0x3310
jmp 0x396f
leaq 0x96e3(%rip), %rsi      # 0xd01e
movq %rbx, %rdi
callq 0x30c0
testl %eax, %eax
je 0x3958
movq (%rbx), %rdi
leaq 0x96d8(%rip), %rsi      # 0xd029
callq 0x3360
jmp 0x3962
movq 0xe661(%rip), %rax      # 0x11fc0
movq (%rax), %rax
movq %rax, 0x28(%rbx)
testq %rax, %rax
je 0x3982
movb $0x0, 0x30(%rbx)
movq %rbx, %rdi
callq 0x3a6c
addq $0x28, %rsp
popq %rbx
popq %r14
popq %r15
popq %rbp
retq
leaq 0x96a3(%rip), %rsi      # 0xd02c
leaq 0x8(%rsp), %rdi
movq %rbx, %rdx
callq 0x4c5b
movq 0xe653(%rip), %rdi      # 0x11ff0
leaq 0x96ec(%rip), %rsi      # 0xd090
movl $0x7, %edx
callq 0x3340
movq 0x8(%rsp), %rsi
movq 0x10(%rsp), %rdx
movq 0xe631(%rip), %rdi      # 0x11ff0
callq 0x3340
movq %rax, %rdi
callq 0x3150
movl $0xffffffff, %edi       # imm = 0xFFFFFFFF
callq 0x3370
movq %rax, %rbx
movq 0x8(%rsp), %rdi
cmpq %r15, %rdi
je 0x39f0
movq 0x18(%rsp), %rsi
incq %rsi
callq 0x32d0
movq %rbx, %rdi
callq 0x3500
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/fastqreader.cpp
// Function: FastqReader::close()
void FastqReader::close(){
	if (mZipped){
		if (mZipFile){
			gzclose(mZipFile);
			mZipFile = NULL;
		}
	}
	else {
		if (mFile){
			fclose(mFile);//mFile.close();
			mFile = NULL;
		}
	}
}

// Assembly:
pushq %rbx
movq %rdi, %rbx
cmpb $0x1, 0x30(%rdi)
jne 0x3a50
movq 0x20(%rbx), %rdi
testq %rdi, %rdi
je 0x3a69
addq $0x20, %rbx
callq 0x34b0
jmp 0x3a62
movq 0x28(%rbx), %rdi
testq %rdi, %rdi
je 0x3a69
addq $0x28, %rbx
callq 0x32b0
movq $0x0, (%rbx)
popq %rbx
retq
nop
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/fastqreader.cpp
// Function: FastqReader::readToBuf()
void FastqReader::readToBuf() {
	if(mZipped) {
		mBufDataLen = gzread(mZipFile, mBuf, FQ_BUF_SIZE);
		if(mBufDataLen == -1) {
			cerr << "Error to read gzip file" << endl;
		}
	} else {
		mBufDataLen = fread(mBuf, 1, FQ_BUF_SIZE, mFile);
	}
	mBufUsedLen = 0;
}

// Assembly:
pushq %r14
pushq %rbx
pushq %rax
movq %rdi, %rbx
cmpb $0x1, 0x30(%rdi)
jne 0x3ad7
movq 0x20(%rbx), %rdi
movq 0x38(%rbx), %rsi
movl $0x100000, %edx         # imm = 0x100000
callq 0x3530
movl %eax, 0x40(%rbx)
cmpl $-0x1, %eax
jne 0x3af1
movq 0xe556(%rip), %r14      # 0x11ff0
leaq 0x9563(%rip), %rsi      # 0xd004
movl $0x17, %edx
movq %r14, %rdi
callq 0x3340
movq (%r14), %rax
movq -0x18(%rax), %rdi
addq %r14, %rdi
movl $0xa, %esi
callq 0x3290
movsbl %al, %esi
movq %r14, %rdi
callq 0x3050
movq %rax, %rdi
callq 0x31b0
jmp 0x3af1
movq 0x28(%rbx), %rcx
movq 0x38(%rbx), %rdi
movl $0x1, %esi
movl $0x100000, %edx         # imm = 0x100000
callq 0x3410
movl %eax, 0x40(%rbx)
movl $0x0, 0x44(%rbx)
addq $0x8, %rsp
popq %rbx
popq %r14
retq
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/fastqreader.cpp
// Function: FastqReader::getBytes(unsigned long&, unsigned long&)
void FastqReader::getBytes(size_t& bytesRead, size_t& bytesTotal) {
	if(mZipped) {
		bytesRead = gzoffset(mZipFile);
	} else {
		bytesRead = ftell(mFile);//mFile.tellg();
	}

	// use another ifstream to not affect current reader
	ifstream is(mFilename);
	is.seekg (0, is.end);
	bytesTotal = is.tellg();
}

// Assembly:
pushq %r15
pushq %r14
pushq %rbx
subq $0x210, %rsp            # imm = 0x210
movq %rdx, %rbx
movq %rsi, %r15
movq %rdi, %r14
cmpb $0x1, 0x30(%rdi)
jne 0x3b26
movq 0x20(%r14), %rdi
callq 0x31a0
jmp 0x3b2f
movq 0x28(%r14), %rdi
callq 0x3030
movq %rax, (%r15)
leaq 0x8(%rsp), %r15
movq %r15, %rdi
movq %r14, %rsi
movl $0x8, %edx
callq 0x3480
movq %r15, %rdi
xorl %esi, %esi
movl $0x2, %edx
callq 0x33b0
leaq 0x8(%rsp), %rdi
callq 0x34f0
movq %rax, (%rbx)
leaq 0x8(%rsp), %rdi
callq 0x30a0
addq $0x210, %rsp            # imm = 0x210
popq %rbx
popq %r14
popq %r15
retq
jmp 0x3b7c
movq %rax, %rbx
leaq 0x8(%rsp), %rdi
callq 0x30a0
movq %rbx, %rdi
callq 0x3500
nop
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/fastqreader.cpp
// Function: FastqReader::clearLineBreaks(char*)
void FastqReader::clearLineBreaks(char* line) {

	// trim \n, \r or \r\n in the tail
	int readed = strlen(line);
	if(readed >=2 ){
		if(line[readed-1] == '\n' || line[readed-1] == '\r'){
			line[readed-1] = '\0';
			if(line[readed-2] == '\r')
				line[readed-2] = '\0';
		}
	}
}

// Assembly:
pushq %rbx
movq %rsi, %rbx
movq %rsi, %rdi
callq 0x3140
cmpl $0x2, %eax
jl 0x3bc9
leal -0x1(%rax), %ecx
movzbl (%rbx,%rcx), %edx
cmpl $0xd, %edx
je 0x3bb4
cmpl $0xa, %edx
jne 0x3bc9
movl $0xfffffffe, %edx       # imm = 0xFFFFFFFE
movb $0x0, (%rbx,%rcx)
addl %edx, %eax
cmpb $0xd, (%rbx,%rax)
jne 0x3bc9
movb $0x0, (%rbx,%rax)
popq %rbx
retq
nop
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/fastqreader.cpp
// Function: FastqReader::eof()
bool FastqReader::eof() {
	if (mZipped) {
		return gzeof(mZipFile);
	} else {
		return feof(mFile);//mFile.eof();
	}
}

// Assembly:
pushq %rax
cmpb $0x1, 0x30(%rdi)
jne 0x3d82
movq 0x20(%rdi), %rdi
callq 0x3100
jmp 0x3d8b
movq 0x28(%rdi), %rdi
callq 0x3450
testl %eax, %eax
setne %al
popq %rcx
retq
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/fastqreader.cpp
// Function: FastqReader::isZipFastq(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>>)
bool FastqReader::isZipFastq(string filename) {
	if (ends_with(filename, ".fastq.gz"))
		return true;
	else if (ends_with(filename, ".fq.gz"))
		return true;
	else if (ends_with(filename, ".fasta.gz"))
		return true;
	else if (ends_with(filename, ".fa.gz"))
		return true;
	else
		return false;
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %rbx
subq $0x28, %rsp
movq %rdi, %rbx
leaq 0x18(%rsp), %r15
movq %r15, -0x10(%r15)
leaq 0x8cb5(%rip), %rsi      # 0xd042
leaq 0x8cb7(%rip), %rdx      # 0xd04b
leaq 0x8(%rsp), %r14
movq %r14, %rdi
callq 0x4ce4
movq (%r14), %rdi
movq 0x8(%r14), %rax
movq 0x8(%rbx), %rcx
cmpq %rcx, %rax
jbe 0x43b6
xorl %r14d, %r14d
jmp 0x43eb
testq %rax, %rax
je 0x43e8
leaq (%rdi,%rax), %rdx
addq (%rbx), %rcx
negq %rax
movq $-0x1, %rsi
movb (%rdx,%rsi), %r8b
cmpb (%rcx,%rsi), %r8b
sete %r14b
jne 0x43eb
leaq -0x1(%rsi), %r8
cmpq %rsi, %rax
movq %r8, %rsi
jne 0x43cc
jmp 0x43eb
movb $0x1, %r14b
cmpq %r15, %rdi
je 0x43fd
movq 0x18(%rsp), %rsi
incq %rsi
callq 0x32d0
movb $0x1, %bpl
testb %r14b, %r14b
jne 0x4584
leaq 0x8(%rsp), %r14
movq %r15, (%r14)
leaq 0x8c71(%rip), %rsi      # 0xd089
leaq 0x8c70(%rip), %rdx      # 0xd08f
movq %r14, %rdi
callq 0x4ce4
movq (%r14), %rdi
movq 0x8(%r14), %rax
movq 0x8(%rbx), %rcx
cmpq %rcx, %rax
jbe 0x443c
xorl %r14d, %r14d
jmp 0x4471
testq %rax, %rax
je 0x446e
leaq (%rdi,%rax), %rdx
addq (%rbx), %rcx
negq %rax
movq $-0x1, %rsi
movb (%rdx,%rsi), %r8b
cmpb (%rcx,%rsi), %r8b
sete %r14b
jne 0x4471
leaq -0x1(%rsi), %r8
cmpq %rsi, %rax
movq %r8, %rsi
jne 0x4452
jmp 0x4471
movb $0x1, %r14b
cmpq %r15, %rdi
je 0x4483
movq 0x18(%rsp), %rsi
incq %rsi
callq 0x32d0
testb %r14b, %r14b
jne 0x4584
leaq 0x8(%rsp), %r14
movq %r15, (%r14)
leaq 0x8bb1(%rip), %rsi      # 0xd04c
leaq 0x8bb3(%rip), %rdx      # 0xd055
movq %r14, %rdi
callq 0x4ce4
movq (%r14), %rdi
movq 0x8(%r14), %rax
movq 0x8(%rbx), %rcx
cmpq %rcx, %rax
jbe 0x44bf
xorl %r14d, %r14d
jmp 0x44f4
testq %rax, %rax
je 0x44f1
leaq (%rdi,%rax), %rdx
addq (%rbx), %rcx
negq %rax
movq $-0x1, %rsi
movb (%rdx,%rsi), %r8b
cmpb (%rcx,%rsi), %r8b
sete %r14b
jne 0x44f4
leaq -0x1(%rsi), %r8
cmpq %rsi, %rax
movq %r8, %rsi
jne 0x44d5
jmp 0x44f4
movb $0x1, %r14b
cmpq %r15, %rdi
je 0x4506
movq 0x18(%rsp), %rsi
incq %rsi
callq 0x32d0
testb %r14b, %r14b
jne 0x4584
leaq 0x8(%rsp), %r14
movq %r15, (%r14)
leaq 0x8b3c(%rip), %rsi      # 0xd056
leaq 0x8b3b(%rip), %rdx      # 0xd05c
movq %r14, %rdi
callq 0x4ce4
movq (%r14), %rdi
movq 0x8(%r14), %rax
movq 0x8(%rbx), %rcx
cmpq %rcx, %rax
jbe 0x453d
xorl %ebp, %ebp
jmp 0x4572
testq %rax, %rax
je 0x456f
leaq (%rdi,%rax), %rdx
addq (%rbx), %rcx
negq %rax
movq $-0x1, %rsi
movb (%rdx,%rsi), %r8b
cmpb (%rcx,%rsi), %r8b
sete %bpl
jne 0x4572
leaq -0x1(%rsi), %r8
cmpq %rsi, %rax
movq %r8, %rsi
jne 0x4553
jmp 0x4572
movb $0x1, %bpl
cmpq %r15, %rdi
je 0x4584
movq 0x18(%rsp), %rsi
incq %rsi
callq 0x32d0
movl %ebp, %eax
addq $0x28, %rsp
popq %rbx
popq %r14
popq %r15
popq %rbp
retq
nop
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/fastqreader.cpp
// Function: FastqReader::isFastq(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>>)
bool FastqReader::isFastq(string filename) {
	if (ends_with(filename, ".fastq"))
		return true;
	else if (ends_with(filename, ".fq"))
		return true;
	else if (ends_with(filename, ".fasta"))
		return true;
	else if (ends_with(filename, ".fa"))
		return true;
	else
		return false;
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %rbx
subq $0x28, %rsp
movq %rdi, %rbx
leaq 0x18(%rsp), %r15
movq %r15, -0x10(%r15)
leaq 0x8aae(%rip), %rsi      # 0xd05d
leaq 0x8aad(%rip), %rdx      # 0xd063
leaq 0x8(%rsp), %r14
movq %r14, %rdi
callq 0x4ce4
movq (%r14), %rdi
movq 0x8(%r14), %rax
movq 0x8(%rbx), %rcx
cmpq %rcx, %rax
jbe 0x45d8
xorl %r14d, %r14d
jmp 0x460d
testq %rax, %rax
je 0x460a
leaq (%rdi,%rax), %rdx
addq (%rbx), %rcx
negq %rax
movq $-0x1, %rsi
movb (%rdx,%rsi), %r8b
cmpb (%rcx,%rsi), %r8b
sete %r14b
jne 0x460d
leaq -0x1(%rsi), %r8
cmpq %rsi, %rax
movq %r8, %rsi
jne 0x45ee
jmp 0x460d
movb $0x1, %r14b
cmpq %r15, %rdi
je 0x461f
movq 0x18(%rsp), %rsi
incq %rsi
callq 0x32d0
movb $0x1, %bpl
testb %r14b, %r14b
jne 0x47a6
leaq 0x8(%rsp), %r14
movq %r15, (%r14)
leaq 0x8a40(%rip), %rsi      # 0xd07a
leaq 0x8a3c(%rip), %rdx      # 0xd07d
movq %r14, %rdi
callq 0x4ce4
movq (%r14), %rdi
movq 0x8(%r14), %rax
movq 0x8(%rbx), %rcx
cmpq %rcx, %rax
jbe 0x465e
xorl %r14d, %r14d
jmp 0x4693
testq %rax, %rax
je 0x4690
leaq (%rdi,%rax), %rdx
addq (%rbx), %rcx
negq %rax
movq $-0x1, %rsi
movb (%rdx,%rsi), %r8b
cmpb (%rcx,%rsi), %r8b
sete %r14b
jne 0x4693
leaq -0x1(%rsi), %r8
cmpq %rsi, %rax
movq %r8, %rsi
jne 0x4674
jmp 0x4693
movb $0x1, %r14b
cmpq %r15, %rdi
je 0x46a5
movq 0x18(%rsp), %rsi
incq %rsi
callq 0x32d0
testb %r14b, %r14b
jne 0x47a6
leaq 0x8(%rsp), %r14
movq %r15, (%r14)
leaq 0x89a7(%rip), %rsi      # 0xd064
leaq 0x89a6(%rip), %rdx      # 0xd06a
movq %r14, %rdi
callq 0x4ce4
movq (%r14), %rdi
movq 0x8(%r14), %rax
movq 0x8(%rbx), %rcx
cmpq %rcx, %rax
jbe 0x46e1
xorl %r14d, %r14d
jmp 0x4716
testq %rax, %rax
je 0x4713
leaq (%rdi,%rax), %rdx
addq (%rbx), %rcx
negq %rax
movq $-0x1, %rsi
movb (%rdx,%rsi), %r8b
cmpb (%rcx,%rsi), %r8b
sete %r14b
jne 0x4716
leaq -0x1(%rsi), %r8
cmpq %rsi, %rax
movq %r8, %rsi
jne 0x46f7
jmp 0x4716
movb $0x1, %r14b
cmpq %r15, %rdi
je 0x4728
movq 0x18(%rsp), %rsi
incq %rsi
callq 0x32d0
testb %r14b, %r14b
jne 0x47a6
leaq 0x8(%rsp), %r14
movq %r15, (%r14)
leaq 0x892f(%rip), %rsi      # 0xd06b
leaq 0x892b(%rip), %rdx      # 0xd06e
movq %r14, %rdi
callq 0x4ce4
movq (%r14), %rdi
movq 0x8(%r14), %rax
movq 0x8(%rbx), %rcx
cmpq %rcx, %rax
jbe 0x475f
xorl %ebp, %ebp
jmp 0x4794
testq %rax, %rax
je 0x4791
leaq (%rdi,%rax), %rdx
addq (%rbx), %rcx
negq %rax
movq $-0x1, %rsi
movb (%rdx,%rsi), %r8b
cmpb (%rcx,%rsi), %r8b
sete %bpl
jne 0x4794
leaq -0x1(%rsi), %r8
cmpq %rsi, %rax
movq %r8, %rsi
jne 0x4775
jmp 0x4794
movb $0x1, %bpl
cmpq %r15, %rdi
je 0x47a6
movq 0x18(%rsp), %rsi
incq %rsi
callq 0x32d0
movl %ebp, %eax
addq $0x28, %rsp
popq %rbx
popq %r14
popq %r15
popq %rbp
retq
nop
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/fastqreader.cpp
// Function: FastqReaderPair::FastqReaderPair(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>>, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>>, bool, bool, bool)
FastqReaderPair::FastqReaderPair(string leftName, string rightName, bool hasQuality, bool phred64, bool interleaved){
	mInterleaved = interleaved;
	mLeft = new FastqReader(leftName, hasQuality, phred64);
	if(mInterleaved)
		mRight = NULL;
	else
		mRight = new FastqReader(rightName, hasQuality, phred64);
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
subq $0x48, %rsp
movl %r8d, %r12d
movl %ecx, %ebp
movq %rdx, (%rsp)
movq %rsi, %r13
movq %rdi, %r14
movb %r9b, 0x10(%rdi)
movl $0x50, %edi
callq 0x32c0
movq %rax, %rbx
leaq 0x38(%rsp), %r15
movq %r15, -0x10(%r15)
movq (%r13), %rsi
movq 0x8(%r13), %rdx
addq %rsi, %rdx
leaq 0x28(%rsp), %rdi
callq 0x4d7a
movzbl %bpl, %ebp
movzbl %r12b, %r12d
leaq 0x28(%rsp), %rsi
movq %rbx, %rdi
movl %ebp, %edx
movl %r12d, %ecx
callq 0x37fc
movq %rbx, (%r14)
movq 0x28(%rsp), %rdi
cmpq %r15, %rdi
je 0x4ac2
movq 0x38(%rsp), %rsi
incq %rsi
callq 0x32d0
cmpb $0x1, 0x10(%r14)
jne 0x4ad3
movq $0x0, 0x8(%r14)
jmp 0x4b2e
movl $0x50, %edi
callq 0x32c0
movq %rax, %rbx
leaq 0x18(%rsp), %r15
movq %r15, -0x10(%r15)
movq (%rsp), %rax
movq (%rax), %rsi
movq 0x8(%rax), %rdx
addq %rsi, %rdx
leaq 0x8(%rsp), %rdi
callq 0x4d7a
leaq 0x8(%rsp), %rsi
movq %rbx, %rdi
movl %ebp, %edx
movl %r12d, %ecx
callq 0x37fc
movq %rbx, 0x8(%r14)
movq 0x8(%rsp), %rdi
cmpq %r15, %rdi
je 0x4b2e
movq 0x18(%rsp), %rsi
incq %rsi
callq 0x32d0
addq $0x48, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
movq %rax, %r14
movq 0x8(%rsp), %rdi
cmpq %r15, %rdi
je 0x4b72
movq 0x18(%rsp), %rsi
jmp 0x4b65
jmp 0x4b6f
movq %rax, %r14
movq 0x28(%rsp), %rdi
cmpq %r15, %rdi
je 0x4b72
movq 0x38(%rsp), %rsi
incq %rsi
callq 0x32d0
jmp 0x4b72
movq %rax, %r14
movl $0x50, %esi
movq %rbx, %rdi
callq 0x32d0
movq %r14, %rdi
callq 0x3500
nop
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/fastqreader.cpp
// Function: FastqReaderPair::~FastqReaderPair()
FastqReaderPair::~FastqReaderPair(){
	if(mLeft){
		delete mLeft;
		mLeft = NULL;
	}
	if(mRight){
		delete mRight;
		mRight = NULL;
	}
}

// Assembly:
pushq %r14
pushq %rbx
pushq %rax
movq %rdi, %rbx
movq (%rdi), %r14
testq %r14, %r14
je 0x4bb3
movq %r14, %rdi
callq 0x39f8
movl $0x50, %esi
movq %r14, %rdi
callq 0x32d0
movq $0x0, (%rbx)
movq 0x8(%rbx), %r14
testq %r14, %r14
je 0x4bd9
movq %r14, %rdi
callq 0x39f8
movl $0x50, %esi
movq %r14, %rdi
callq 0x32d0
movq $0x0, 0x8(%rbx)
addq $0x8, %rsp
popq %rbx
popq %r14
retq
nop
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/fastqreader.cpp
// Function: FastqReaderPair::read()
ReadPair* FastqReaderPair::read(){
	Read* l = mLeft->read();
	Read* r = NULL;
	if(mInterleaved)
		r = mLeft->read();
	else
		r = mRight->read();
	if(!l || !r){
		return NULL;
	} else {
		return new ReadPair(l, r);
	}
}

// Assembly:
pushq %r15
pushq %r14
pushq %rbx
movq %rdi, %rbx
movq (%rdi), %rdi
callq 0x3d92
movq %rax, %r14
movzbl 0x10(%rbx), %eax
xorl $0x1, %eax
movq (%rbx,%rax,8), %rdi
callq 0x3d92
xorl %ebx, %ebx
testq %r14, %r14
je 0x4c2f
movq %rax, %r15
testq %rax, %rax
je 0x4c2f
movl $0x10, %edi
callq 0x32c0
movq %rax, %rbx
movq %rax, %rdi
movq %r14, %rsi
movq %r15, %rdx
callq 0xba8a
movq %rbx, %rax
popq %rbx
popq %r14
popq %r15
retq
movq %rax, %r14
movl $0x10, %esi
movq %rbx, %rdi
callq 0x32d0
movq %r14, %rdi
callq 0x3500
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/cmdline.h
// Function: std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>> const& cmdline::parser::get<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>>>(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>> const&) const
const T &get(const std::string &name) const {
    if (options.count(name)==0) throw cmdline_error("there is no flag: --"+name);
    const option_with_value<T> *p=dynamic_cast<const option_with_value<T>*>(options.find(name)->second);
    if (p==NULL) throw cmdline_error("type mismatch flag '"+name+"'");
    return p->get();
  }

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %rbx
subq $0x48, %rsp
movq %rsi, %r14
movq %rdi, %rbx
callq 0x6c3a
leaq 0x8(%rbx), %rcx
cmpq %rcx, %rax
je 0x5a7a
movq %rbx, %rdi
movq %r14, %rsi
callq 0x6c3a
movq 0x40(%rax), %rdi
testq %rdi, %rdi
je 0x5a27
leaq 0xc22b(%rip), %rsi      # 0x11c30
leaq 0xc2c4(%rip), %rdx      # 0x11cd0
xorl %ecx, %ecx
callq 0x3330
testq %rax, %rax
je 0x5a27
addq $0x78, %rax
addq $0x48, %rsp
popq %rbx
popq %r14
popq %r15
popq %rbp
retq
movl $0x28, %edi
callq 0x3160
movq %rax, %rbx
leaq 0x78aa(%rip), %rsi      # 0xd2e5
leaq 0x28(%rsp), %rdi
movq %r14, %rdx
callq 0x4c5b
leaq 0x7a69(%rip), %rsi      # 0xd4b8
leaq 0x28(%rsp), %rdi
callq 0x3550
leaq 0x18(%rsp), %r15
movq %r15, -0x10(%r15)
movq (%rax), %rdx
movq %rax, %rcx
addq $0x10, %rcx
cmpq %rcx, %rdx
jne 0x5ac5
movups (%rcx), %xmm0
movups %xmm0, (%r15)
jmp 0x5ad2
movl $0x28, %edi
callq 0x3160
movq %rax, %rbx
leaq 0x7732(%rip), %rsi      # 0xd1c0
leaq 0x8(%rsp), %rdi
movq %r14, %rdx
callq 0x4c5b
movb $0x1, %bpl
leaq 0x8(%rsp), %rsi
movq %rbx, %rdi
callq 0x6cc4
xorl %ebp, %ebp
leaq 0xc0cc(%rip), %rsi      # 0x11b80
leaq 0x1253(%rip), %rdx      # 0x6d0e
movq %rbx, %rdi
callq 0x34d0
jmp 0x5b11
movq %rdx, 0x8(%rsp)
movq (%rcx), %rdx
movq %rdx, 0x18(%rsp)
movq 0x8(%rax), %rdx
leaq 0x8(%rsp), %rsi
movq %rdx, 0x8(%rsi)
movq %rcx, (%rax)
movq $0x0, 0x8(%rax)
movb $0x0, 0x10(%rax)
movb $0x1, %bpl
movq %rbx, %rdi
callq 0x6cc4
xorl %ebp, %ebp
leaq 0xc07e(%rip), %rsi      # 0x11b80
leaq 0x1205(%rip), %rdx      # 0x6d0e
movq %rbx, %rdi
callq 0x34d0
movq %rax, %r14
movq 0x8(%rsp), %rdi
cmpq %r15, %rdi
je 0x5b2b
movq 0x18(%rsp), %rsi
incq %rsi
callq 0x32d0
leaq 0x38(%rsp), %rax
movq -0x10(%rax), %rdi
cmpq %rax, %rdi
je 0x5b7e
movq 0x38(%rsp), %rsi
jmp 0x5b76
movq %rax, %r14
leaq 0x38(%rsp), %rax
movq -0x10(%rax), %rdi
cmpq %rax, %rdi
je 0x5b8a
movq 0x38(%rsp), %rsi
incq %rsi
callq 0x32d0
jmp 0x5b8a
movq %rax, %r14
leaq 0x18(%rsp), %rax
movq -0x10(%rax), %rdi
cmpq %rax, %rdi
je 0x5b7e
movq 0x18(%rsp), %rsi
incq %rsi
callq 0x32d0
testb %bpl, %bpl
jne 0x5b8a
jmp 0x5b92
jmp 0x5b87
movq %rax, %r14
movq %rbx, %rdi
callq 0x31f0
movq %r14, %rdi
callq 0x3500
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/cmdline.h
// Function: cmdline::parser::check(int, bool)
void check(int argc, bool ok){
    if ((argc==1 && !ok) || exist("help")){
      std::cerr<<usage();
      exit(0);
    }

    if (!ok){
      std::cerr<<error()<<std::endl<<usage();
      exit(1);
    }
  }

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %rbx
subq $0x48, %rsp
movl %edx, %ebp
movq %rdi, %rbx
movl %ebp, %eax
xorb $0x1, %al
cmpl $0x1, %esi
sete %cl
testb %al, %cl
jne 0x5e2a
leaq 0x18(%rsp), %r15
movq %r15, -0x10(%r15)
leaq 0x739b(%rip), %rsi      # 0xd178
leaq 0x7398(%rip), %rdx      # 0xd17c
leaq 0x8(%rsp), %rdi
callq 0x4ce4
leaq 0x8(%rsp), %rsi
movq %rbx, %rdi
callq 0x73ba
movl %eax, %r14d
movq 0x8(%rsp), %rdi
cmpq %r15, %rdi
je 0x5e15
movq 0x18(%rsp), %rsi
incq %rsi
callq 0x32d0
testb %r14b, %r14b
jne 0x5e2a
testb %bpl, %bpl
je 0x5e5a
addq $0x48, %rsp
popq %rbx
popq %r14
popq %r15
popq %rbp
retq
leaq 0x8(%rsp), %r14
movq %r14, %rdi
movq %rbx, %rsi
callq 0x7470
movq 0xc1af(%rip), %rdi      # 0x11ff0
movq %r14, %rsi
callq 0x3250
leaq 0x8(%rsp), %rdi
callq 0x3578
xorl %edi, %edi
callq 0x3370
leaq 0x8(%rsp), %r14
movq %r14, %rdi
movq %rbx, %rsi
callq 0x7820
movq (%r14), %rsi
movq 0x8(%r14), %rdx
movq 0xc178(%rip), %rdi      # 0x11ff0
callq 0x3340
movq %rax, %rdi
callq 0x3150
movq %rax, %r14
leaq 0x28(%rsp), %rdi
movq %rbx, %rsi
callq 0x7470
leaq 0x28(%rsp), %rsi
movq %r14, %rdi
callq 0x3250
leaq 0x28(%rsp), %rdi
callq 0x3578
leaq 0x8(%rsp), %rdi
callq 0x3578
movl $0x1, %edi
callq 0x3370
movq %rax, %rbx
leaq 0x38(%rsp), %rax
movq -0x10(%rax), %rdi
cmpq %rax, %rdi
je 0x5ee7
movq 0x38(%rsp), %rsi
incq %rsi
callq 0x32d0
jmp 0x5ee7
jmp 0x5ee4
jmp 0x5ee4
movq %rax, %rbx
movq 0x8(%rsp), %rdi
cmpq %r15, %rdi
jne 0x5f04
jmp 0x5f16
movq %rax, %rbx
leaq 0x18(%rsp), %rax
movq -0x10(%rax), %rdi
cmpq %rax, %rdi
je 0x5f16
movq 0x18(%rsp), %rsi
incq %rsi
callq 0x32d0
jmp 0x5f16
movq %rax, %rbx
movq %rbx, %rdi
callq 0x3500
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/cmdline.h
// Function: cmdline::parser::set_option(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>> const&, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>> const&)
void set_option(const std::string &name, const std::string &value){
    if (options.count(name)==0){
      errors.push_back("undefined option: --"+name);
      return;
    }
    if (!options[name]->set(value)){
      errors.push_back("option value is invalid: --"+name+"="+value);
      return;
    }
  }

// Assembly:
pushq %r15
pushq %r14
pushq %r12
pushq %rbx
subq $0x68, %rsp
movq %rdx, %r14
movq %rsi, %r15
movq %rdi, %rbx
callq 0x6c3a
leaq 0x8(%rbx), %rcx
cmpq %rcx, %rax
je 0x79a2
movq %rbx, %rdi
movq %r15, %rsi
callq 0x6dc4
movq (%rax), %rdi
movq (%rdi), %rax
movq %r14, %rsi
callq *0x20(%rax)
testb %al, %al
jne 0x7ab8
leaq 0x595b(%rip), %rsi      # 0xd2b7
leaq 0x48(%rsp), %r12
movq %r12, %rdi
movq %r15, %rdx
callq 0x4c5b
leaq 0x61fb(%rip), %rsi      # 0xdb6e
movq %r12, %rdi
callq 0x3550
leaq 0x38(%rsp), %r15
movq %r15, -0x10(%r15)
movq (%rax), %rdx
movq %rax, %rcx
addq $0x10, %rcx
cmpq %rcx, %rdx
je 0x79e7
movq %rdx, 0x28(%rsp)
movq (%rcx), %rdx
movq %rdx, 0x38(%rsp)
jmp 0x79ee
addq $0xa0, %rbx
leaq 0x5897(%rip), %rsi      # 0xd247
leaq 0x8(%rsp), %r14
movq %r14, %rdi
movq %r15, %rdx
callq 0x4c5b
movq %rbx, %rdi
movq %r14, %rsi
callq 0x7c5e
leaq 0x18(%rsp), %rax
movq -0x10(%rax), %rdi
cmpq %rax, %rdi
je 0x7ab8
movq 0x18(%rsp), %rsi
jmp 0x7ab0
movups (%rcx), %xmm0
movups %xmm0, (%r15)
movq 0x8(%rax), %rdx
leaq 0x28(%rsp), %rdi
movq %rdx, 0x8(%rdi)
movq %rcx, (%rax)
movq $0x0, 0x8(%rax)
movb $0x0, 0x10(%rax)
movq (%r14), %rsi
movq 0x8(%r14), %rdx
callq 0x30e0
addq $0xa0, %rbx
leaq 0x18(%rsp), %r14
movq %r14, -0x10(%r14)
movq (%rax), %rdx
movq %rax, %rcx
addq $0x10, %rcx
cmpq %rcx, %rdx
je 0x7a44
movq %rdx, 0x8(%rsp)
movq (%rcx), %rdx
movq %rdx, 0x18(%rsp)
jmp 0x7a4b
movups (%rcx), %xmm0
movups %xmm0, (%r14)
movq 0x8(%rax), %rdx
leaq 0x8(%rsp), %rsi
movq %rdx, 0x8(%rsi)
movq %rcx, (%rax)
movq $0x0, 0x8(%rax)
movb $0x0, 0x10(%rax)
movq %rbx, %rdi
callq 0x7c5e
movq 0x8(%rsp), %rdi
cmpq %r14, %rdi
je 0x7a86
movq 0x18(%rsp), %rsi
incq %rsi
callq 0x32d0
movq 0x28(%rsp), %rdi
cmpq %r15, %rdi
je 0x7a9d
movq 0x38(%rsp), %rsi
incq %rsi
callq 0x32d0
leaq 0x58(%rsp), %rax
movq -0x10(%rax), %rdi
cmpq %rax, %rdi
je 0x7ab8
movq 0x58(%rsp), %rsi
incq %rsi
callq 0x32d0
addq $0x68, %rsp
popq %rbx
popq %r12
popq %r14
popq %r15
retq
movq %rax, %rbx
movq 0x8(%rsp), %rdi
cmpq %r14, %rdi
je 0x7ae3
movq 0x18(%rsp), %rsi
incq %rsi
callq 0x32d0
jmp 0x7ae3
movq %rax, %rbx
movq 0x28(%rsp), %rdi
cmpq %r15, %rdi
je 0x7aff
movq 0x38(%rsp), %rsi
incq %rsi
callq 0x32d0
jmp 0x7aff
movq %rax, %rbx
leaq 0x58(%rsp), %rax
movq -0x10(%rax), %rdi
cmpq %rax, %rdi
je 0x7b32
movq 0x58(%rsp), %rsi
jmp 0x7b2a
movq %rax, %rbx
leaq 0x18(%rsp), %rax
movq -0x10(%rax), %rdi
cmpq %rax, %rdi
je 0x7b32
movq 0x18(%rsp), %rsi
incq %rsi
callq 0x32d0
movq %rbx, %rdi
callq 0x3500
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/cmdline.h
// Function: cmdline::parser::set_option(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>> const&)
void set_option(const std::string &name){
    if (options.count(name)==0){
      errors.push_back("undefined option: --"+name);
      return;
    }
    if (!options[name]->set()){
      errors.push_back("option needs value: --"+name);
      return;
    }
  }

// Assembly:
pushq %r15
pushq %r14
pushq %rbx
subq $0x20, %rsp
movq %rsi, %r14
movq %rdi, %rbx
callq 0x6c3a
leaq 0x8(%rbx), %rcx
cmpq %rcx, %rax
je 0x7b98
movq %rbx, %rdi
movq %r14, %rsi
callq 0x6dc4
movq (%rax), %rdi
movq (%rdi), %rax
callq *0x18(%rax)
testb %al, %al
jne 0x7bda
addq $0xa0, %rbx
leaq 0x56df(%rip), %rsi      # 0xd25c
movq %rsp, %r15
movq %r15, %rdi
movq %r14, %rdx
callq 0x4c5b
movq %rbx, %rdi
movq %r15, %rsi
callq 0x7c5e
jmp 0x7bbf
addq $0xa0, %rbx
leaq 0x56a1(%rip), %rsi      # 0xd247
movq %rsp, %r15
movq %r15, %rdi
movq %r14, %rdx
callq 0x4c5b
movq %rbx, %rdi
movq %r15, %rsi
callq 0x7c5e
leaq 0x10(%rsp), %rax
movq -0x10(%rax), %rdi
cmpq %rax, %rdi
je 0x7bda
movq 0x10(%rsp), %rsi
incq %rsi
callq 0x32d0
addq $0x20, %rsp
popq %rbx
popq %r14
popq %r15
retq
jmp 0x7be6
movq %rax, %rbx
leaq 0x10(%rsp), %rax
movq -0x10(%rax), %rdi
cmpq %rax, %rdi
je 0x7c04
movq 0x10(%rsp), %rsi
incq %rsi
callq 0x32d0
movq %rbx, %rdi
callq 0x3500
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/cmdline.h
// Function: cmdline::parser::option_with_value<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>>>::set(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>> const&)
bool set(const std::string &value){
      try{
        actual=read(value);
        has=true;
      }
      catch(const std::exception &e){
        return false;
      }
      return true;
    }

// Assembly:
pushq %r14
pushq %rbx
subq $0x28, %rsp
movq %rsi, %rdx
movq %rdi, %rbx
movq (%rdi), %rax
leaq 0x8(%rsp), %rdi
movq %rbx, %rsi
callq *0x60(%rax)
leaq 0x78(%rbx), %rdi
leaq 0x8(%rsp), %r14
movq %r14, %rsi
callq 0x3380
movq (%r14), %rdi
leaq 0x18(%rsp), %rax
cmpq %rax, %rdi
je 0x8616
movq 0x18(%rsp), %rsi
incq %rsi
callq 0x32d0
movb $0x1, 0x50(%rbx)
movb $0x1, %al
addq $0x28, %rsp
popq %rbx
popq %r14
retq
movq %rax, %rdi
cmpl $0x1, %edx
jne 0x863a
callq 0x3130
callq 0x34a0
xorl %eax, %eax
jmp 0x861c
callq 0x3500
nop
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/util.h
// Function: check_file_valid(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>> const&)
inline void check_file_valid(const  string& s) {
    if(!file_exists(s)){
        cerr << "ERROR: file '" << s << "' doesn't exist, quit now" << endl;
        exit(-1);
    }
    if(is_directory(s)){
        cerr << "ERROR: '" << s << "' is a folder, not a file, quit now" << endl;
        exit(-1);
    }
}

// Assembly:
pushq %r14
pushq %rbx
subq $0x98, %rsp
movq %rdi, %rbx
cmpq $0x0, 0x8(%rdi)
je 0x9272
movq (%rbx), %rdi
leaq 0x8(%rsp), %rsi
callq 0x3260
testl %eax, %eax
jne 0x9272
movq (%rbx), %rdi
leaq 0x8(%rsp), %r14
movq %r14, %rsi
callq 0x3260
btl $0xe, 0x18(%r14)
jb 0x9299
addq $0x98, %rsp
popq %rbx
popq %r14
retq
movq 0x8d77(%rip), %rdi      # 0x11ff0
leaq 0x4209(%rip), %rsi      # 0xd489
callq 0x32a0
movq %rax, %rdi
movq %rbx, %rsi
callq 0x3250
leaq 0x4200(%rip), %rsi      # 0xd497
jmp 0x92be
movq 0x8d50(%rip), %rdi      # 0x11ff0
leaq 0x420a(%rip), %rsi      # 0xd4b1
callq 0x32a0
movq %rax, %rdi
movq %rbx, %rsi
callq 0x3250
leaq 0x41fc(%rip), %rsi      # 0xd4ba
movq %rax, %rdi
callq 0x32a0
movq %rax, %rdi
callq 0x3150
movl $0xffffffff, %edi       # imm = 0xFFFFFFFF
callq 0x3370
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/read.cpp
// Function: Read::Read(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>>, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>>, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>>, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>>, bool)
Read::Read(string name, string seq, string strand, string quality, bool phred64){
	mName = name;
	mSeq = Sequence(seq);
	mStrand = strand;
	mQuality = quality;
	mHasQuality = true;
	if(phred64)
		convertPhred64To33();
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
subq $0x78, %rsp
movl %r9d, 0xc(%rsp)
movq %r8, %r12
movq %rcx, %r13
movq %rdx, %r15
movq %rsi, %rbp
movq %rdi, %rbx
leaq 0x10(%rdi), %rax
movq %rax, 0x20(%rsp)
movq %rax, (%rdi)
movq $0x0, 0x8(%rdi)
movb $0x0, 0x10(%rdi)
leaq 0x20(%rdi), %r14
movq %r14, %rdi
callq 0xc8f8
leaq 0x40(%rbx), %rax
movq %rax, 0x30(%rsp)
leaq 0x50(%rbx), %rax
movq %rax, 0x18(%rsp)
movq %rax, 0x40(%rbx)
xorl %eax, %eax
movq %rax, 0x48(%rbx)
movb %al, 0x50(%rbx)
leaq 0x60(%rbx), %rcx
movq %rcx, 0x28(%rsp)
leaq 0x70(%rbx), %rcx
movq %rcx, 0x10(%rsp)
movq %rcx, 0x60(%rbx)
movq %rax, 0x68(%rbx)
movb %al, 0x70(%rbx)
movq %rbx, %rdi
movq %rbp, %rsi
callq 0x3190
leaq 0x48(%rsp), %rbp
movq %rbp, -0x10(%rbp)
movq (%r15), %rsi
movq 0x8(%r15), %rdx
addq %rsi, %rdx
leaq 0x38(%rsp), %rdi
callq 0x4d7a
leaq 0x58(%rsp), %rdi
leaq 0x38(%rsp), %rsi
callq 0xc90c
leaq 0x58(%rsp), %r15
movq %r14, %rdi
movq %r15, %rsi
callq 0x3380
movq (%r15), %rdi
leaq 0x68(%rsp), %rax
cmpq %rax, %rdi
je 0xa40b
movq 0x68(%rsp), %rsi
incq %rsi
callq 0x32d0
movq 0x38(%rsp), %rdi
cmpq %rbp, %rdi
je 0xa422
movq 0x48(%rsp), %rsi
incq %rsi
callq 0x32d0
movq 0x30(%rsp), %rdi
movq %r13, %rsi
callq 0x3190
movq 0x28(%rsp), %rdi
movq %r12, %rsi
callq 0x3190
movb $0x1, 0x80(%rbx)
cmpb $0x0, 0xc(%rsp)
je 0xa474
cmpq $0x0, 0x68(%rbx)
je 0xa474
xorl %eax, %eax
movq 0x60(%rbx), %rcx
movzbl (%rcx,%rax), %edx
cmpb $0x41, %dl
jge 0xa465
movl $0x40, %edx
addb $-0x1f, %dl
movb %dl, (%rcx,%rax)
incq %rax
cmpq %rax, 0x68(%rbx)
ja 0xa453
addq $0x78, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
movq %rax, %r12
movq 0x38(%rsp), %rdi
cmpq %rbp, %rdi
je 0xa4a9
movq 0x48(%rsp), %rsi
incq %rsi
callq 0x32d0
jmp 0xa4a9
jmp 0xa4a6
movq %rax, %r12
jmp 0xa4ff
movq %rax, %r12
movq 0x28(%rsp), %rax
movq (%rax), %rdi
cmpq 0x10(%rsp), %rdi
je 0xa4c8
movq 0x10(%rsp), %rax
movq (%rax), %rsi
incq %rsi
callq 0x32d0
movq 0x30(%rsp), %rax
movq (%rax), %rdi
cmpq 0x18(%rsp), %rdi
je 0xa4e7
movq 0x18(%rsp), %rax
movq (%rax), %rsi
incq %rsi
callq 0x32d0
movq 0x20(%rbx), %rdi
leaq 0x30(%rbx), %rax
cmpq %rax, %rdi
je 0xa4ff
movq (%rax), %rsi
incq %rsi
callq 0x32d0
movq (%rbx), %rdi
cmpq 0x20(%rsp), %rdi
je 0xa519
movq 0x20(%rsp), %rax
movq (%rax), %rsi
incq %rsi
callq 0x32d0
movq %r12, %rdi
callq 0x3500
nop
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/read.cpp
// Function: Read::Read(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>>, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>>, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>>)
Read::Read(string name, string seq, string strand){
	mName = name;
	mSeq = Sequence(seq);
	mStrand = strand;
	mHasQuality = false;
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
subq $0x58, %rsp
movq %rcx, %r15
movq %rdx, %r13
movq %rsi, %rbp
movq %rdi, %rbx
leaq 0x10(%rdi), %rax
movq %rax, 0x8(%rsp)
movq %rax, (%rdi)
movq $0x0, 0x8(%rdi)
movb $0x0, 0x10(%rdi)
leaq 0x20(%rdi), %r12
movq %r12, %rdi
callq 0xc8f8
leaq 0x40(%rbx), %rax
movq %rax, 0x10(%rsp)
leaq 0x50(%rbx), %rax
movq %rax, (%rsp)
movq %rax, 0x40(%rbx)
xorl %eax, %eax
movq %rax, 0x48(%rbx)
movb %al, 0x50(%rbx)
leaq 0x70(%rbx), %r14
movq %r14, 0x60(%rbx)
movq %rax, 0x68(%rbx)
movb %al, 0x70(%rbx)
movq %rbx, %rdi
movq %rbp, %rsi
callq 0x3190
leaq 0x28(%rsp), %rbp
movq %rbp, -0x10(%rbp)
movq (%r13), %rsi
movq 0x8(%r13), %rdx
addq %rsi, %rdx
leaq 0x18(%rsp), %rdi
callq 0x4d7a
leaq 0x38(%rsp), %rdi
leaq 0x18(%rsp), %rsi
callq 0xc90c
leaq 0x38(%rsp), %r13
movq %r12, %rdi
movq %r13, %rsi
callq 0x3380
movq (%r13), %rdi
leaq 0x48(%rsp), %rax
cmpq %rax, %rdi
je 0xa61c
movq 0x48(%rsp), %rsi
incq %rsi
callq 0x32d0
movq 0x18(%rsp), %rdi
cmpq %rbp, %rdi
je 0xa633
movq 0x28(%rsp), %rsi
incq %rsi
callq 0x32d0
movq 0x10(%rsp), %rdi
movq %r15, %rsi
callq 0x3190
movb $0x0, 0x80(%rbx)
addq $0x58, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
movq %rax, %r15
movq 0x18(%rsp), %rdi
cmpq %rbp, %rdi
je 0xa67c
movq 0x28(%rsp), %rsi
incq %rsi
callq 0x32d0
jmp 0xa67c
jmp 0xa679
movq %rax, %r15
jmp 0xa6c5
movq %rax, %r15
movq 0x60(%rbx), %rdi
cmpq %r14, %rdi
je 0xa690
movq (%r14), %rsi
incq %rsi
callq 0x32d0
movq 0x10(%rsp), %rax
movq (%rax), %rdi
cmpq (%rsp), %rdi
je 0xa6ad
movq (%rsp), %rax
movq (%rax), %rsi
incq %rsi
callq 0x32d0
movq 0x20(%rbx), %rdi
leaq 0x30(%rbx), %rax
cmpq %rax, %rdi
je 0xa6c5
movq (%rax), %rsi
incq %rsi
callq 0x32d0
movq (%rbx), %rdi
cmpq 0x8(%rsp), %rdi
je 0xa6df
movq 0x8(%rsp), %rax
movq (%rax), %rsi
incq %rsi
callq 0x32d0
movq %r15, %rdi
callq 0x3500
nop
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/read.cpp
// Function: Read::Read(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>>, Sequence, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>>, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>>, bool)
Read::Read(string name, Sequence seq, string strand, string quality, bool phred64){
	mName = name;
	mSeq = seq;
	mStrand = strand;
	mQuality = quality;
	mHasQuality = true;
	if(phred64)
		convertPhred64To33();
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
subq $0x38, %rsp
movl %r9d, 0xc(%rsp)
movq %r8, 0x28(%rsp)
movq %rcx, 0x30(%rsp)
movq %rdx, %rbp
movq %rsi, %r14
movq %rdi, %rbx
leaq 0x10(%rdi), %rax
movq %rax, 0x18(%rsp)
movq %rax, (%rdi)
movq $0x0, 0x8(%rdi)
movb $0x0, 0x10(%rdi)
leaq 0x20(%rdi), %r15
movq %r15, %rdi
callq 0xc8f8
leaq 0x40(%rbx), %rax
movq %rax, 0x20(%rsp)
leaq 0x50(%rbx), %rax
movq %rax, 0x10(%rsp)
movq %rax, 0x40(%rbx)
xorl %eax, %eax
movq %rax, 0x48(%rbx)
movb %al, 0x50(%rbx)
leaq 0x60(%rbx), %r13
leaq 0x70(%rbx), %r12
movq %r12, 0x60(%rbx)
movq %rax, 0x68(%rbx)
movb %al, 0x70(%rbx)
movq %rbx, %rdi
movq %r14, %rsi
callq 0x3190
movq %r15, %rdi
movq %rbp, %rsi
callq 0x3190
movq 0x20(%rsp), %rdi
movq 0x30(%rsp), %rsi
callq 0x3190
movq %r13, %rdi
movq 0x28(%rsp), %rsi
callq 0x3190
movb $0x1, 0x80(%rbx)
cmpb $0x0, 0xc(%rsp)
je 0xa7ce
cmpq $0x0, 0x68(%rbx)
je 0xa7ce
xorl %eax, %eax
movq 0x60(%rbx), %rcx
movzbl (%rcx,%rax), %edx
cmpb $0x41, %dl
jge 0xa7bf
movl $0x40, %edx
addb $-0x1f, %dl
movb %dl, (%rcx,%rax)
incq %rax
cmpq %rax, 0x68(%rbx)
ja 0xa7ad
addq $0x38, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
movq %rax, %r14
jmp 0xa831
movq %rax, %r14
movq (%r13), %rdi
cmpq %r12, %rdi
je 0xa7fa
movq (%r12), %rsi
incq %rsi
callq 0x32d0
movq 0x20(%rsp), %rax
movq (%rax), %rdi
cmpq 0x10(%rsp), %rdi
je 0xa819
movq 0x10(%rsp), %rax
movq (%rax), %rsi
incq %rsi
callq 0x32d0
movq 0x20(%rbx), %rdi
leaq 0x30(%rbx), %rax
cmpq %rax, %rdi
je 0xa831
movq (%rax), %rsi
incq %rsi
callq 0x32d0
movq (%rbx), %rdi
cmpq 0x18(%rsp), %rdi
je 0xa84b
movq 0x18(%rsp), %rax
movq (%rax), %rsi
incq %rsi
callq 0x32d0
movq %r14, %rdi
callq 0x3500
nop
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/read.cpp
// Function: Read::Read(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>>, Sequence, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char>>)
Read::Read(string name, Sequence seq, string strand){
	mName = name;
	mSeq = seq;
	mStrand = strand;
	mHasQuality = false;
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
subq $0x18, %rsp
movq %rcx, %r14
movq %rdx, %r12
movq %rsi, %rbp
movq %rdi, %rbx
leaq 0x10(%rdi), %rax
movq %rax, 0x8(%rsp)
movq %rax, (%rdi)
movq $0x0, 0x8(%rdi)
movb $0x0, 0x10(%rdi)
leaq 0x20(%rdi), %r13
movq %r13, %rdi
callq 0xc8f8
leaq 0x40(%rbx), %rax
movq %rax, 0x10(%rsp)
leaq 0x50(%rbx), %rax
movq %rax, (%rsp)
movq %rax, 0x40(%rbx)
xorl %eax, %eax
movq %rax, 0x48(%rbx)
movb %al, 0x50(%rbx)
leaq 0x70(%rbx), %r15
movq %r15, 0x60(%rbx)
movq %rax, 0x68(%rbx)
movb %al, 0x70(%rbx)
movq %rbx, %rdi
movq %rbp, %rsi
callq 0x3190
movq %r13, %rdi
movq %r12, %rsi
callq 0x3190
movq 0x10(%rsp), %rdi
movq %r14, %rsi
callq 0x3190
movb $0x0, 0x80(%rbx)
addq $0x18, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
movq %rax, %r14
jmp 0xa949
movq %rax, %r14
movq 0x60(%rbx), %rdi
cmpq %r15, %rdi
je 0xa914
movq (%r15), %rsi
incq %rsi
callq 0x32d0
movq 0x10(%rsp), %rax
movq (%rax), %rdi
cmpq (%rsp), %rdi
je 0xa931
movq (%rsp), %rax
movq (%rax), %rsi
incq %rsi
callq 0x32d0
movq 0x20(%rbx), %rdi
leaq 0x30(%rbx), %rax
cmpq %rax, %rdi
je 0xa949
movq (%rax), %rsi
incq %rsi
callq 0x32d0
movq (%rbx), %rdi
cmpq 0x8(%rsp), %rdi
je 0xa963
movq 0x8(%rsp), %rax
movq (%rax), %rsi
incq %rsi
callq 0x32d0
movq %r14, %rdi
callq 0x3500
nop
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/read.cpp
// Function: Read::Read(Read&)
Read::Read(Read &r) {
	mName = r.mName;
	mSeq = r.mSeq;
	mStrand = r.mStrand;
	mQuality = r.mQuality;
	mHasQuality = r.mHasQuality;
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %r13
pushq %r12
pushq %rbx
subq $0x18, %rsp
movq %rsi, %r15
movq %rdi, %rbx
leaq 0x10(%rdi), %rax
movq %rax, 0x10(%rsp)
movq %rax, (%rdi)
movq $0x0, 0x8(%rdi)
movb $0x0, 0x10(%rdi)
leaq 0x20(%rdi), %r13
movq %r13, %rdi
callq 0xc8f8
leaq 0x40(%rbx), %r14
leaq 0x50(%rbx), %rax
movq %rax, 0x8(%rsp)
movq %rax, 0x40(%rbx)
xorl %eax, %eax
movq %rax, 0x48(%rbx)
movb %al, 0x50(%rbx)
leaq 0x60(%rbx), %r12
leaq 0x70(%rbx), %rbp
movq %rbp, 0x60(%rbx)
movq %rax, 0x68(%rbx)
movb %al, 0x70(%rbx)
movq %rbx, %rdi
movq %r15, %rsi
callq 0x3190
leaq 0x20(%r15), %rsi
movq %r13, %rdi
callq 0x3190
leaq 0x40(%r15), %rsi
movq %r14, %rdi
callq 0x3190
leaq 0x60(%r15), %rsi
movq %r12, %rdi
callq 0x3190
movb 0x80(%r15), %al
movb %al, 0x80(%rbx)
addq $0x18, %rsp
popq %rbx
popq %r12
popq %r13
popq %r14
popq %r15
popq %rbp
retq
movq %rax, %r15
jmp 0xaa6b
movq %rax, %r15
movq (%r12), %rdi
cmpq %rbp, %rdi
je 0xaa39
movq (%rbp), %rsi
incq %rsi
callq 0x32d0
movq (%r14), %rdi
cmpq 0x8(%rsp), %rdi
je 0xaa53
movq 0x8(%rsp), %rax
movq (%rax), %rsi
incq %rsi
callq 0x32d0
movq 0x20(%rbx), %rdi
leaq 0x30(%rbx), %rax
cmpq %rax, %rdi
je 0xaa6b
movq (%rax), %rsi
incq %rsi
callq 0x32d0
movq (%rbx), %rdi
cmpq 0x10(%rsp), %rdi
je 0xaa85
movq 0x10(%rsp), %rax
movq (%rax), %rsi
incq %rsi
callq 0x32d0
movq %r15, %rdi
callq 0x3500
nop
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/read.cpp
// Function: Read::print()
void Read::print(){
	std::cerr << mName << endl;
	std::cerr << mSeq.mStr << endl;
	std::cerr << mStrand << endl;
	if(mHasQuality)
		std::cerr << mQuality << endl;
}

// Assembly:
pushq %r15
pushq %r14
pushq %rbx
movq %rdi, %rbx
movq (%rdi), %rsi
movq 0x8(%rdi), %rdx
movq 0x754c(%rip), %r14      # 0x11ff0
movq %r14, %rdi
callq 0x3340
movq %rax, %r15
movq (%rax), %rax
movq -0x18(%rax), %rdi
addq %r15, %rdi
movl $0xa, %esi
callq 0x3290
movsbl %al, %esi
movq %r15, %rdi
callq 0x3050
movq %rax, %rdi
callq 0x31b0
movq 0x20(%rbx), %rsi
movq 0x28(%rbx), %rdx
movq %r14, %rdi
callq 0x3340
movq %rax, %r15
movq (%rax), %rax
movq -0x18(%rax), %rdi
addq %r15, %rdi
movl $0xa, %esi
callq 0x3290
movsbl %al, %esi
movq %r15, %rdi
callq 0x3050
movq %rax, %rdi
callq 0x31b0
movq 0x40(%rbx), %rsi
movq 0x48(%rbx), %rdx
movq %r14, %rdi
callq 0x3340
movq %rax, %r14
movq (%rax), %rax
movq -0x18(%rax), %rdi
addq %r14, %rdi
movl $0xa, %esi
callq 0x3290
movsbl %al, %esi
movq %r14, %rdi
callq 0x3050
movq %rax, %rdi
callq 0x31b0
cmpb $0x1, 0x80(%rbx)
jne 0xab96
movq 0x60(%rbx), %rsi
movq 0x68(%rbx), %rdx
movq 0x748e(%rip), %rdi      # 0x11ff0
callq 0x3340
movq %rax, %rbx
movq (%rax), %rax
movq -0x18(%rax), %rdi
addq %rbx, %rdi
movl $0xa, %esi
callq 0x3290
movsbl %al, %esi
movq %rbx, %rdi
callq 0x3050
movq %rax, %rdi
popq %rbx
popq %r14
popq %r15
jmp 0x31b0
popq %rbx
popq %r14
popq %r15
retq
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/read.cpp
// Function: Read::printFile(std::basic_ofstream<char, std::char_traits<char>>&)
void Read::printFile(ofstream& file){
	file << mName << endl;
	file << mSeq.mStr << endl;
	file << mStrand << endl;
	if(mHasQuality)
		file << mQuality << endl;
}

// Assembly:
pushq %r15
pushq %r14
pushq %rbx
movq %rsi, %rbx
movq %rdi, %r14
movq (%rdi), %rsi
movq 0x8(%rdi), %rdx
movq %rbx, %rdi
callq 0x3340
movq %rax, %r15
movq (%rax), %rax
movq -0x18(%rax), %rdi
addq %r15, %rdi
movl $0xa, %esi
callq 0x3290
movsbl %al, %esi
movq %r15, %rdi
callq 0x3050
movq %rax, %rdi
callq 0x31b0
movq 0x20(%r14), %rsi
movq 0x28(%r14), %rdx
movq %rbx, %rdi
callq 0x3340
movq %rax, %r15
movq (%rax), %rax
movq -0x18(%rax), %rdi
addq %r15, %rdi
movl $0xa, %esi
callq 0x3290
movsbl %al, %esi
movq %r15, %rdi
callq 0x3050
movq %rax, %rdi
callq 0x31b0
movq 0x40(%r14), %rsi
movq 0x48(%r14), %rdx
movq %rbx, %rdi
callq 0x3340
movq %rax, %r15
movq (%rax), %rax
movq -0x18(%rax), %rdi
addq %r15, %rdi
movl $0xa, %esi
callq 0x3290
movsbl %al, %esi
movq %r15, %rdi
callq 0x3050
movq %rax, %rdi
callq 0x31b0
cmpb $0x1, 0x80(%r14)
jne 0xac9d
movq 0x60(%r14), %rsi
movq 0x68(%r14), %rdx
movq %rbx, %rdi
callq 0x3340
movq %rax, %rbx
movq (%rax), %rax
movq -0x18(%rax), %rdi
addq %rbx, %rdi
movl $0xa, %esi
callq 0x3290
movsbl %al, %esi
movq %rbx, %rdi
callq 0x3050
movq %rax, %rdi
popq %rbx
popq %r14
popq %r15
jmp 0x31b0
popq %rbx
popq %r14
popq %r15
retq
nop
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/read.cpp
// Function: Read::changeToReverseComplement()
void Read::changeToReverseComplement() {
	int len = length();
	for(int i=0; i<len/2; i++) {
		// swap quality
		char tmp = mQuality[i];
		mQuality[i] = mQuality[len-i-1];
		mQuality[len-i-1] = tmp;

		// swap seq
		tmp = mSeq.mStr[i];
		mSeq.mStr[i] = mSeq.mStr[len-i-1];
		mSeq.mStr[len-i-1] = tmp;
	}

	// make complement
	for(int c=0;c<len;c++){
        char base = mSeq.mStr[c];
        switch(base){
            case 'A':
            case 'a':
                mSeq.mStr[c] = 'T';
                break;
            case 'T':
            case 't':
                mSeq.mStr[c] = 'A';
                break;
            case 'C':
            case 'c':
                mSeq.mStr[c] = 'G';
                break;
            case 'G':
            case 'g':
                mSeq.mStr[c] = 'C';
                break;
            default:
                mSeq.mStr[c] = 'N';
        }
    }
}

// Assembly:
pushq %r14
pushq %rbx
pushq %rax
movq %rdi, %r14
leaq 0x20(%rdi), %rbx
movq %rbx, %rdi
callq 0xc964
movl %eax, %ecx
cmpl $0x2, %eax
jl 0xb04f
movl %eax, %edx
shrl %edx
leaq -0x1(%rcx), %rsi
xorl %edi, %edi
movq 0x60(%r14), %r8
movb (%r8,%rdi), %r9b
movb (%r8,%rsi), %r10b
movb %r10b, (%r8,%rdi)
movq 0x60(%r14), %r8
movb %r9b, (%r8,%rsi)
movq 0x20(%r14), %r8
movb (%r8,%rdi), %r9b
movb (%r8,%rsi), %r10b
movb %r10b, (%r8,%rdi)
movq 0x20(%r14), %r8
movb %r9b, (%r8,%rsi)
incq %rdi
decq %rsi
cmpq %rdi, %rdx
jne 0xb014
testl %eax, %eax
jle 0xb0b6
xorl %eax, %eax
movq (%rbx), %rdx
movzbl (%rdx,%rax), %esi
movb $0x54, %dil
cmpl $0x60, %esi
jg 0xb075
cmpl $0x46, %esi
jg 0xb089
cmpl $0x41, %esi
je 0xb0aa
cmpl $0x43, %esi
je 0xb084
jmp 0xb093
cmpl $0x66, %esi
jg 0xb098
cmpl $0x61, %esi
je 0xb0aa
cmpl $0x63, %esi
jne 0xb093
movb $0x47, %dil
jmp 0xb0aa
cmpl $0x47, %esi
je 0xb0a7
cmpl $0x54, %esi
je 0xb0a2
movb $0x4e, %dil
jmp 0xb0aa
cmpl $0x67, %esi
je 0xb0a7
cmpl $0x74, %esi
jne 0xb093
movb $0x41, %dil
jmp 0xb0aa
movb $0x43, %dil
movb %dil, (%rdx,%rax)
incq %rax
cmpq %rax, %rcx
jne 0xb055
addq $0x8, %rsp
popq %rbx
popq %r14
retq
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/read.cpp
// Function: Read::resize(int)
void Read::resize(int len) {
	if(len > length() || len<0)
		return ;
	mSeq.mStr.resize(len);
	mQuality.resize(len);
}

// Assembly:
pushq %rbp
pushq %r15
pushq %r14
pushq %rbx
pushq %rax
movl %esi, %ebp
movq %rdi, %rbx
leaq 0x20(%rdi), %r14
movq %r14, %rdi
callq 0xc964
testl %ebp, %ebp
js 0xb113
cmpl %ebp, %eax
jl 0xb113
movl %ebp, %r15d
movq %r14, %rdi
movq %r15, %rsi
xorl %edx, %edx
callq 0x30d0
addq $0x60, %rbx
movq %rbx, %rdi
movq %r15, %rsi
xorl %edx, %edx
addq $0x8, %rsp
popq %rbx
popq %r14
popq %r15
popq %rbp
jmp 0x30d0
addq $0x8, %rsp
popq %rbx
popq %r14
popq %r15
popq %rbp
retq
// File: /workspace/github_c_makefile_star2_O3/OpenGene[P]pecheck/src/read.cpp
// Function: Read::lastIndex[abi:cxx11]()
string Read::lastIndex(){
	int len = mName.length();
	if(len<5)
		return "";
	for(int i=len-3;i>=0;i--){
		if(mName[i]==':' || mName[i]=='+'){
			return mName.substr(i+1, len-i);
		}
	}
	return "";
}

// Assembly:
pushq %rbx
movq %rdi, %rbx
movq 0x8(%rsi), %rcx
cmpl $0x4, %ecx
jle 0xb213
movl $0xfffffffd, %eax       # imm = 0xFFFFFFFD
leal (%rcx,%rax), %edx
movq (%rsi), %rdi
shlq $0x20, %rcx
movq %rdx, %r8
shlq $0x20, %r8
subq %r8, %rcx
incq %rdx
movzbl -0x1(%rdi,%rdx), %r8d
cmpl $0x3a, %r8d
je 0xb22e
cmpl $0x2b, %r8d
je 0xb22e
addq %rax, %rcx
addq $0x3, %rcx
decq %rdx
jg 0xb1f5
leaq 0x10(%rbx), %rax
movq %rax, (%rbx)
leaq 0x292a(%rip), %rdx      # 0xdb4b
movq %rbx, %rdi
movq %rdx, %rsi
callq 0x4ce4
jmp 0xb23c
movl %edx, %edx
sarq $0x20, %rcx
movq %rbx, %rdi
callq 0x32f0
movq %rbx, %rax
popq %rbx
retq
nop