csv_reader_iterator & operator++()
{
switch (status) {
case PENULTIMATE:
status = END;
return *this;
case END:
throw new std::logic_error("Trying to advance invalid iterator");
case VALID: ;
}
wchar_t buffer[BUFFER_SIZE];
int buffer_size = -1;
int i = 0;
load_saved_buffer(buffer, buffer_size);
current_line.fields.clear();
skip_newlines(buffer, buffer_size, i);
if (i == buffer_size && input_stream_p->eof()) {
status = END;
return *this;
}
// add a column of the csv line in each iteration
while (true) {
field_buffer_p->str(L"");
read_field(buffer, buffer_size, i);
if (i == buffer_size && input_stream_p->eof()) {
break;
}
fill_buffer_if_empty(buffer, buffer_size, i);
// end of csv line, were done :)
if (L'\n' == buffer[i]) {
break;
}
// another column, just continue the loop
if (delimiter == buffer[i]) {
i += 1;
continue;
}
throw std::logic_error("Unexpected character encountered");
}
skip_newlines(buffer, buffer_size, i);
if (input_stream_p->eof() && i == buffer_size) {
input_stream_p = wistream_pt();
status = PENULTIMATE;
}
save_buffer(buffer, buffer_size, i);
return *this;
}
size_t read_sequence(std::istream& is, const size_t read, char* const start, const char stop) {
size_t nread = read;
while(is && nread < buf_size_ - 1 && is.peek() != stop) {
// Skip new lines -> get below does like them
skip_newlines(is);
is.get(start + nread, buf_size_ - nread);
nread += is.gcount();
skip_newlines(is);
}
return nread - read;
}
// Skip quals header and qual values (read_len) of them.
void skip_quals(std::istream& is, size_t read_len) {
ignore_line(is);
size_t quals = 0;
while(is.good() && quals < read_len) {
skip_newlines(is);
is.ignore(read_len - quals + 1, '\n');
quals += is.gcount();
if(is)
++read_len;
}
skip_newlines(is);
if(quals == read_len && (is.peek() == '@' || is.peek() == EOF))
return;
throw std::runtime_error("Invalid fastq sequence");
}
// Scope
ScopeNode* Parser::parse_scope()
{
auto node = ast.store.alloc<ScopeNode>();
node->code = *token_iter;
std::vector<StatementNode*> statements;
// Open scope
if (token_iter->type != LPAREN) {
// Error
std::ostringstream msg;
msg << "Opening scope with wrong character: '" << token_iter->text << "'.";
parsing_error(*token_iter, msg.str());
}
++token_iter;
// Push this scope
fn_scope.push_scope();
while (true) {
skip_newlines();
// Close scope?
if (token_iter->type == RPAREN) {
++token_iter;
break;
}
// Should be an expression
else {
statements.push_back(parse_statement());
}
}
node->statements = ast.store.alloc_from_iters(statements.begin(), statements.end());
// Pop this scope
fn_scope.pop_scope();
node->code.text.set_end((token_iter - 1)->text.end());
return node;
}
